• Forge Version:
  14.23.5.2859
• BuildCraft Version (Add Hash if from github):
  buildcraft-all-7.99.24.8
• Any additonal mods:

 AppleSkin-mc1.12-1.0.14.jar
 blockdrops-1.12.2-1.4.0.jar
 buildcraft-all-7.99.24.8.jar
 camouflagedcreepers-1.7.1.jar
 chunkloaders-1.2.8b-forge-mc1.12.jar
 Clumps-3.1.2.jar
 CodeChickenLib-1.12.2-3.2.3.358-universal.jar
 collective-1.12.2-3.0.jar
 corpse-1.12.2-1.0.8.jar
 creeperconfetti-1.4.2.jar
 ElevatorMod-1.12.2-1.3.14.jar
 EnderStorage-1.12.2-2.4.6.137-universal.jar
 FastLeafDecay-v14.jar
'Fasttrading-2.0-mc[1.12,1.12.2+].jar'
 Galacticraft-1.12.2-4.0.6.jar
 Hwyla-1.8.26-B41_1.12.2.jar
 InventoryTweaks-1.63.jar
 ironchest-1.12.2-7.0.72.847.jar
 irontanks-1.12.2-2.1.0-beta.18.jar
 jei_1.12.2-4.16.1.301.jar
 journeymap-1.12.2-5.7.1p2.jar
 JustEnoughResources-1.12.2-0.9.2.60.jar
 LLOverlayReloaded-1.1.6-mc1.12.2.jar
 OptiFine_1.12.2_HD_U_G5.jar
 simplemagnets-1.1.12-forge-mc1.12.jar
 supermartijn642configlib-1.1.8-forge-mc1.12.jar
 _supermartijn642corelib-1.1.18-forge-mc1.12.jar
 tektopia-1.1.0.jar
 TektopiaInformation-1.12.2-1.1.0-1.12.0.jar
 TektopiaRecycler-1.12.2-1.1.0-1.3.0.jar
 TinyMobFarm-1.12.2-1.0.5.jar
 villagespawnpoint_1.12.2-1.8.jar
 Wawla-1.12.2-2.6.275.jar
 Waystones_1.12.2-4.1.0.jar

Steps to reproduce the behavior:

part 1: simple setup

all 3 basic gates are the same
for simplicity I'm defining some things here
transfer pipe: pipe at the top of the picture
trigger pipe: pipe on the bottom
input chest: top right chest
output chest: top left chest

part 2: testing setup

basic gate on structure pipe:

basic gate on trigger pipe:

i have added this buffer so it would allow me to trigger multiple tests from one trigger pipe
here is my testing set up, its basically the same except pipes are rearranged and i have 2 lines of tests feeding into each other (command blocks used for cloning)

part 3: expected behavior and issues

expected behavior:

1. I send an item trough a trigger pipe
2. Iron gate triggers a pipe pulsar pulse to send an item
3. White wire blinks once before first item is extracted
4. After first item is extracted white wire stays on (basic gates on both wooden and iron pipe should make sure it isn't blinking) and powers pipe pulsar until all items are extracted
5. After all items are extracted white wire turns off and so does pipe pulsar

issue

During step 4 while item is going between wooden and iron pipe white wire blinks. (It doesn't happen always to think it is expected behavior, but it happens quite often to get annoying and break my machines)
Because of that after last item is extracted it triggers another pulse on pipe pulsar which should be powered off after the final item is extracted