Game freezes whenever saving or autosaving after clearing NCRCF of enemies and leaving the facility. Can save within the facility but once I've left it freezing issues occur upon fast travel, entering a building, waiting or on manual save attempts. Autosave is on for all of these.
Removing DLC and clearing cache has not helped and causes the game to freeze on load.
Companions: Lily and ED-E (ED-E My Love quest in process of completion, ED-E has just been given to the Followers of the Apocalypse).

Rolled back to an earlier save and as it was the autosave that was bugging out it's been overwritten. Old save's OK; there are 16 save files to this account.

I encounterd the same issue with the NCRF. I found that any kind of saving makes the game crash. After a few hours of experimenting and trouble shooting I found a rather simple fix:
1. Delete all updates/patches by clearing your system cache. (if you don't know how to do that look Ito up on YouTube)
2. Start the game.
3. When prompted to update the game decline. NOTE: this will sign you out of XLIve
4. Load up the save game file.
5. After your game has finished loading, fast travel as far away from the area you spawned in as possible.
6. Save your game
7. Exit to your dashboard and re-start the game
8. OPTIONAL: re-download all patches
9. Load the game and enjoy

I hope this helps
-BWO

Nope, that doesn't help. As was already said in the post, trying to load the game after clearing the cache caused it to freeze mid-load. Tried it 4 times with no success.

i think it may have to do something with ed-e. i just gave him to the followers and every time i get anywhere near the gun runners it does the same thing.