I just went around reading all the terminals in the whitespring bunker... And I found out what really happened there. Today i was playing 76, and i got bored, so i decided to head on in the the (oddly clean) whitespring bunker. I went around finding all the terminals that could give me some info on what actually happened here, and When i finally got to the end of all the terminals... I found out the eerie truth of why that Enclave Bunker is under MODUS' command. 

He killed all those enclave emebers. Every one of them. Most of them not directly, but the more crutial members he killed by his own hand. He left the other "non important" members to either starve, dehydrate, or go crazy and start killing each other, or themselves...  

When i first met MODUS at the begining of the game, i found him to be quite "gentlemen like". Very appropriate, eerily calm. But I also thought he was hiding something. And now i know why he wanted his secrets to be kept.