Reporting abuse
To answer your question, What recourse do I have if I believe a moderator has abused his/her privileges?What recourse do I have if I believe a moderator has abused his/her privileges? describes how to report it.
Personally I've never tried to "report abuse".
Lineages
I hope/expect it's wrong to assume that questions are closed because of "not so mainstream lineages".
It's more likely to be ordinary close reasons, "unclear what you're asking", "off-topic", "subjective", "too broad": reasons why a question might be impossible to answer accurately on a StackExchange Q+A site.
Using chat
On other StackExchange sites I've seen, people (including at least one moderator) use a site's Chat room. A moderator might be lurking in the chat room (or have visited the chat room recently enough that you can @tag them there). If there's a moderator decision or comment which I don't understand, I might post a message in the chat room, hoping/expecting that a moderator will see me post in chat, and discuss/explain the decision.
As a result of using the chat room and using meta (on other sites), for discussions over weeks and months, even if I (still) don't agree with 100% of the moderator decisions, at least I understand them better now, know that I'm not 100% correct either, and that when they disagree with me that's not "moderator abuse".
However, people (including moderators) on this site don't seem to use the chat room on this site. Maybe it would help if they did (it's good to "chat", when you can't "see" the people you're working with). Or maybe it's not worth their while, I don't know. I'm grateful people even take time to be here on the main site.
Private chat
Instead of using a public chat room, moderators are also able to initiate a private chat if they think that's necessary.
Using meta
Alternatively you can discuss specific questions on meta: ask whether a question on-topic, whether it should be asked, whether it can be answered, whether and how to improve it. Use the specific-question tag on meta, for meta-topics whose subject is a single/specific question on the main site.
Moderators are, to some extent, here to enforce the rules and standards expressed/chosen by the community. And Meta is a place where people ("community members") can discuss specific questions.