Large percentage of modded SH5 CTDs are user related or a consequence of large number imported but inadequately tested SH3/SH4 units. In your case it's probably combination of both (since you use old gamesaves with new modlist ect).
I'm afraid that with constantly updated custom modlist like yours, there is no much things that you can do except to check few tips for stable gameplay and hope for the best...
On a side note , the problem of "large number imported but inadequately tested SH3/SH4 units" is the main goal and especially addressed in new TWoS 1.06 so, hopefully, issues like yours will become things of the past...
Happy hunting!