I connect wood and stone transport pipes, and the game crashes.

---- Minecraft Crash Report ----
// Oops.

Time: 6/19/13 9:01 PM
Description: Rendering Tile Entity

java.lang.IndexOutOfBoundsException: Index: 0, Size: 0
at java.util.ArrayList.RangeCheck(ArrayList.java:547)
at java.util.ArrayList.get(ArrayList.java:322)
at net.minecraft.nbt.NBTTagList.func_74743_b(NBTTagList.java:106)
at jds.bibliocraft.rendering.TileEntityBookcaseRenderer.func_76894_a(TileEntityBookcaseRenderer.java:110)
at net.minecraft.client.renderer.tileentity.TileEntityRenderer.func_76949_a(SourceFile:107)
at net.minecraft.client.renderer.tileentity.TileEntityRenderer.func_76950_a(SourceFile:99)
at net.minecraft.client.renderer.RenderGlobal.func_72713_a(RenderGlobal.java:520)
at net.minecraft.client.renderer.EntityRenderer.func_78471_a(EntityRenderer.java:1150)
at net.minecraft.client.renderer.EntityRenderer.func_78480_b(EntityRenderer.java:991)
at net.minecraft.client.Minecraft.func_71411_J(Minecraft.java:870)
at net.minecraft.client.Minecraft.run(Minecraft.java:759)
at java.lang.Thread.run(Thread.java:680)

A detailed walkthrough of the error, its code path and all known details is as follows:

-- Head --
Stacktrace:
at java.util.ArrayList.RangeCheck(ArrayList.java:547)
at java.util.ArrayList.get(ArrayList.java:322)
at net.minecraft.nbt.NBTTagList.func_74743_b(NBTTagList.java:106)
at jds.bibliocraft.rendering.TileEntityBookcaseRenderer.func_76894_a(TileEntityBookcaseRenderer.java:110)

-- Tile Entity Details --
Details:
Name: BookcaseTile // jds.bibliocraft.tileentities.TileEntityBookcase
Block type: ID #2250 (tile.Bibliotheca // jds.bibliocraft.blocks.BlockBookcase)
Block data value: 0 / 0x0 / 0b0000
Block location: World: (46,237,-51), Chunk: (at 14,14,13 in 2,-4; contains blocks 32,0,-64 to 47,255,-49), Region: (0,-1; contains chunks 0,-32 to 31,-1, blocks 0,0,-512 to 511,255,-1)
Actual block type: ID #2250 (tile.Bibliotheca // jds.bibliocraft.blocks.BlockBookcase)
Actual block data value: 0 / 0x0 / 0b0000
Stacktrace:
at net.minecraft.client.renderer.tileentity.TileEntityRenderer.func_76949_a(SourceFile:107)
at net.minecraft.client.renderer.tileentity.TileEntityRenderer.func_76950_a(SourceFile:99)
at net.minecraft.client.renderer.RenderGlobal.func_72713_a(RenderGlobal.java:520)
at net.minecraft.client.renderer.EntityRenderer.func_78471_a(EntityRenderer.java:1150)

-- Affected level --
Details:
Level name: MpServer
All players: 1 total; [EntityClientPlayerMP['supergameplayer'/55371, l='MpServer', x=46.33, y=238.62, z=-47.68]]
Chunk stats: MultiplayerChunkCache: 441
Level seed: 0
Level generator: ID 01 - flat, ver 0. Features enabled: false
Level generator options:
Level spawn location: World: (0,4,0), Chunk: (at 0,0,0 in 0,0; contains blocks 0,0,0 to 15,255,15), Region: (0,0; contains chunks 0,0 to 31,31, blocks 0,0,0 to 511,255,511)
Level time: 15766 game time, 15766 day time
Level dimension: 0
Level storage version: 0x00000 - Unknown?
Level weather: Rain time: 0 (now: false), thunder time: 0 (now: false)
Level game mode: Game mode: creative (ID 1). Hardcore: false. Cheats: false
Forced entities: 9 total; [EntityChicken['Chicken'/55358, l='MpServer', x=-13.50, y=237.00, z=-96.50], EntityChicken['Chicken'/55356, l='MpServer', x=-13.50, y=237.00, z=-99.50], EntityChicken['Chicken'/55357, l='MpServer', x=-14.50, y=237.00, z=-100.50], EntityPig['Pig'/55354, l='MpServer', x=-25.88, y=237.00, z=-98.84], EntityChicken['Chicken'/55363, l='MpServer', x=84.53, y=237.00, z=23.47], EntityChicken['Chicken'/55365, l='MpServer', x=110.41, y=237.00, z=26.44], EntityChicken['Chicken'/55364, l='MpServer', x=102.47, y=237.00, z=27.47], EntityClientPlayerMP['supergameplayer'/55371, l='MpServer', x=46.33, y=238.62, z=-47.68], EntityChicken['Chicken'/55366, l='MpServer', x=109.38, y=237.00, z=22.59]]
Retry entities: 0 total; []
Stacktrace:
at net.minecraft.client.multiplayer.WorldClient.func_72914_a(WorldClient.java:441)
at net.minecraft.client.Minecraft.func_71396_d(Minecraft.java:2413)
at net.minecraft.client.Minecraft.run(Minecraft.java:775)
at java.lang.Thread.run(Thread.java:680)

-- System Details --
Details:
Minecraft Version: 1.5.1
Operating System: Mac OS X (x86_64) version 10.6.8
Java Version: 1.6.0_45, Apple Inc.
Java VM Version: Java HotSpot(TM) 64-Bit Server VM (mixed mode), Apple Inc.
Memory: 171754648 bytes (163 MB) / 717217792 bytes (683 MB) up to 1069416448 bytes (1019 MB)
JVM Flags: 3 total; -Xbootclasspath/a:/System/Library/PrivateFrameworks/JavaApplicationLauncher.framework/Resources/LauncherSupport.jar -Xms512M -Xmx1024M
AABB Pool Size: 129 (7224 bytes; 0 MB) allocated, 9 (504 bytes; 0 MB) used
Suspicious classes: FML and Forge are installed
IntCache: cache: 0, tcache: 0, allocated: 0, tallocated: 0
FML: MCP v7.44 FML v5.1.42.672 Minecraft Forge 7.7.1.672 36 mods loaded, 36 mods active
mcp{7.44} Minecraft Coder Pack Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
FML{5.1.42.672} Forge Mod Loader Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
Forge{7.7.1.672} Minecraft Forge Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
CodeChickenCore{0.8.6.3} CodeChicken Core Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
NotEnoughItems{1.5.2.10} Not Enough Items Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
BasicComponents{1.3.1} Basic Components Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
AssemblyLine{0.3.5.102} Assembly Line Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
AtomicScience{0.5.1} Atomic Science Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
iChunUtil{1.0.0} iChunUtil Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
Grinder{1.0.0} [Grinder](AttachableGrinder-1.0.0 14-51-33.zip) Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
BiblioCraft{1.2.3} BiblioCraft Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
ICBM|Contraption{1.1.2} ICBM Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
ElectricExpansion{2.3.0.51} Electric Expansion Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
NBTEdit{1.5.1.4} In-game NBTEdit Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
ICBM|Sentry{1.1.2} ICBM Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
ICBM|Explosion{1.1.2} ICBM Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
ModularForceFieldSystem{3.0.0} Modular Force Field System Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
mmmPowersuits{0.6.0-450} MachineMuse's Modular Powersuits Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
PowersuitAddons{0.2.3-131} Andrew2448's Modular Powersuits Addon Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
Mekanism{5.5.4} Mekanism Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
MekanismGenerators{5.5.4} MekanismGenerators Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
MekanismTools{5.5.4} MekanismTools Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
NEIPlugins{1.0.8.0} NEI Plugins Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
BuildCraft|Core{3.5.0} BuildCraft Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
BuildCraft|Builders{3.5.0} BC Builders Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
BuildCraft|Energy{3.5.0} BC Energy Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
BuildCraft|Factory{3.5.0} BC Factory Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
Railcraft{7.2.1.0} Railcraft Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
TrailMix{1.5.0.1} TrailMix Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
BuildCraft|Transport{3.5.0} BC Transport Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
BuildCraft|Silicon{3.5.0} BC Silicon Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
iChun_Core{1.0.0} iChun_Core Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
ImmibisCore{54.0.2} Immibis Core Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
IronChest{5.2.4.390} Iron Chest Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
Saphir09_Chocolate{10.0} Chocolate Mod Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
Tubestuff{54.0.0} Tubestuff Unloaded->Constructed->Pre-initialized->Initialized->Post-initialized->Available->Available->Available->Available->Available->Available->Available->Available->Available
LWJGL: 2.4.2
OpenGL: NVIDIA GeForce 9400M OpenGL Engine GL version 2.1 NVIDIA-1.6.36, NVIDIA Corporation
Is Modded: Definitely; Client brand changed to 'fml,forge'
Type: Client (map_client.txt)
Texture Pack: Default
Profiler Position: N/A (disabled)
Vec3 Pool Size: 72 (4032 bytes; 0 MB) allocated, 30 (1680 bytes; 0 MB) used

Agreed

at jds.bibliocraft.rendering.TileEntityBookcaseRenderer.func_76894_a(TileEntityBookcaseRenderer.java:110)

This appears to be a Bibliocraft issue and not a BuildCraft issue. Please report it to the author(s) of Bibliocraft.