if you buy the lethal pouch from tailor and or buy ingridients via gold cheat you may end up like me not being able to do anything in bomb craft window for quest, as the add bombs wont do anything, and ingridients with be unknown for lethal, just a heads up as i now have to restart all over again.
well if it the bomb craft quest bug then only way i found is start over and not grab the pouch\upgrade and works, wonder how many other oddities are in my way. starting to think to do all missions then after main quest done go back and get everything else.
if you buy the lethal pouch from tailor and or buy ingridients via gold cheat you may end up like me not being able to do anything in bomb craft window for quest, as the add bombs wont do anything, and ingridients with be unknown for lethal, just a heads up as i now have to restart all over again.
is there some reason you KNOW the trainer causes this? the trainer just increases your gold, that's it.
Maybe the game expects you to to be unable to buy the pouch at the time you can do the quest?
It's not a failure of the trainer in that case but a warning could be added to the readme.txt
Other reason could be that TS had added bombs while the quest hasn't started yet, again no failure of the trainer and a warning in the txt could be suffice.
my bombs also got messed up but i never used the money cheat (well through the trainer i did get more money using cheatengine before trainer was released) i used the unlimited ammo though and after using the bomb craft a couple times things got pretty buggy and after loading save without using trainer now i cant use my lethal pouch either it just doesnt work in the bomb craft... only lethal bombs i can get more of are the ones i had equipped when it went buggy those i can add more of through the weapon select menu *edit* i can also buy them from the blackmarket dealer just cant craft them myself
no fault of the trainer, just side stupidity of user and ubisoft for making the upgrade/pouch so cheap and purchasable before the bomb craft quest, thus a disclaimer that is game breaking.
trainer by itself works awesome, the super stealth is super buggy with load zone/game cinematics, but once you know where it happens can be easily unbroken by going to animus island and back in the nexus with cheat off to advance, then use at will again afterwards.
Not sure to restart or keep going 
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