So I have been playing fallout 4 for close to 300 hours and I am on my third character and can't believe how many perks are broken. I have lost dozens of hours reverting back to old saves or quit characters completely because of broken perks, I'm almost scared to upgrade a perk without researching if it is bugged or not at this point. My melee build lost about 4 hours when I upgraded the big league perk to max, it was disappointing to find out so late in the game the perk I had been striving for and was the base of the character was glitched. Here are some other perks that have caused me lots of grief in fallout 4 so far:
Big Leagues Rank 5
Demolition Expert Rank 4
Grim Reaper's Sprint Rank 3
Ninja Perk
Kill Shot
Cloak & Dagger
Nuclear Physicist with the Repair bobblehead
Any perks cause you guys grief?