Trying to figure this out...

[dogscoff]

By FQO I assume you mean FQM - that one is generally (comparatively) easy to merge with other mods, since it only alters files which other mods tend to leave alone.

Merging mods is not easy. You need to sit down, decide which bits of which mods you are going to use, then start copy/pasting. You will find that copy pasting alone though is not enough- there will be times when two things you want to incorporate clash with one another, and then you have to get a bit creative as to how to implement both. Then there's all the bugtesting, and searching the files for double-blank lines and things like that... it's a hell of a job.

I'm not a modding expert though, so feel free to completely disregard everything I've just said if anyone more knowledgeable says something contrary =-)