I'm not sure if this is intentional but the mod favors enchantments in a way that doesn't make sense to me,
when mining fortune ores, (diamonds, emeralds, lapis, redstone, glowstone the mod prefers.....

fort-3 < eff-1 fort-1
fort-3 < mend-1 fort-1
fort-3 unb-5 < eff-1 fort-1

To me id mich rather wait an extra fraction of a second for my non-efficiant pickaxe to get 3X the diamonds then to use my faster pickaxe

Set toolEnchantmentsStack to false in autoswitch.cfg.

Closing. If this did not fix your issue, feel free to reopen.