Pre-war enclave which was a shadow government attempted to create Deathclaws to send into China with the Master refining them and they funded research into FEV, Mariposa Super Mutants were created by the Master which the Enclave enslaved until the Mariposa super mutants broke free. D.C. super mutants were created by accident in Vault 87.
Spoiler Commonwealth Super Mutants were created by the Institute's own brand of FEV
The Enclave stayed in the Oil Rig until the events of Fallout 2, the march was to flee from their opponents who consisted of the BoS and the NCR who destroyed Navarro which was under-staffed because Autumn senior forced most of the population in Navarro to go on the long trek. The only known facilities they established were the Chicago outposts which most likely was established as the only connection between Navarro and the Enclave now in D.C. but given that ED-E never actually made it to any of the Chicago outposts we can theorize they're gone.
The Enclave ENTIRE population was now in D.C. with the majority in Raven Rock which was destroyed and the ones that managed to regroup were later destroyed at the missile crawler at Adams Air Force Base. If there were other bases ED-E would've been sent to them for maintence but it wasn't, the only stop along the way was the Chicago Outposts which, again, ED-E didn't stop at and than to Navarro which was completely destroyed by the NCR and BoS.
Think about it, why would Autumn Senior take almost all of the staff at Navarro? Because they were woefully undermanned, the Chicago outpost given that it was suppose to be ED-E stopping point were clearly set up to maintain communications with Navarro with the MAJORITY of the Enclave's forces landing in D.C.
Again, face it the Enclave is dead and whatever remnants are around would be so tired and see their entire endeavor as pointless because they haven't had a single victory against any of their enemies. They failed to fight off the Chosen One and lost a majority of their population, they lost Navarro, they probably lost Chicago because ED-E never made it to the outposts, they lost Raven Rock and they lost the missile crawler. They have nothing left, they're DEAD.
The Enclave only had 1000 people with most of them dying when the Oil Rig blew up, they don't have an infinite amount of people, they don't recruit wasters, they would literally at most be a handful of soldiers and officers who managed to get away from BoS patrols and strike teams and would see even coming back as hopeless.
The Enclave lost LITERALLY everything.