I was thinking, what if we did a complete revamp of the Enclave system.
Part of the problem with the MKIV Enclaves in general is that it forces you to pay the extra knowledge, even if you already have access to a MKIV Factory - which is pointless.
Here's my suggestion to revamp it, and make it a lot more relevant and useful:
MK1 Enclaves = Free, can only build MK1 ships.
MK2 Enclaves = 2,000 knowledge, can only build MK2 ships.
MK3 Enclaves = 2,500 knowledge, can only build MK3 ships.
MK4 Enclaves = 3,000 knowledge, can only build MK4 ships, must have a MKIV Factory captured somewhere in the galaxy in order to function.
Core Enclaves = 10,000 knowledge, can build all MK1-MK4 ships, builds at 12x speed of a normal factory, does not require a Factory in order to build MKIV stuff. Has the Neinzul Regeneration Chamber ability, which works on all allied fleet ships.
The Core Enclaves would be a solution for the player who had lost their factory, or decided to skip it. The advantage it has over all the Neinzul Enclave predecessors is that it can build every tier of ship (1-4), so the player saves a lot of energy and hassle not needing to bring all the other types along, as well as having the Neinzul Regeneration Chamber ability.
This way, the player isn't forced to pay the ridiculous knowledge cost of an entirely new MKIV Factory, just to be able to produce ships from the Enclaves - but that option is still open to them in the worst case scenarios.