It might or might not be related. You will find some games that complain on their page that they had to switch to direct pay out. Since I found those pages, they are very probably not deindexed. So, no, that is not the package itch shartily deals out: deindex+switch to direct pay out. They deal out both separatly.
But you could have been the target of a troll that mass reported your games for false reasons. Itch rather deindexes games than deal with the false reports. Or so it seems. They very recently were duped into banning a very popular account. It took a week or two to restore that account. And since they do not talk about this, no one knows why it happened or why it was restored. And since it was restored, why they banned it in the first place. My speculation is, that no human was involved in the banning.
There seems to be a general shortage of staff dealing with any kind of support issue. So things that would usually only take days, take weeks or over a month. And meanwhile accounts like yours with paid games and years of being published are deindexed and accounts like the one in R-71648 are indexed. (There are several stolen games on that one. The whole account uses a fake profile. I told them 3 times alreay. No human dealt with those tickets or some lazy intern ignored them. The first pirated or malware was published over two months ago, the last only a week ago.)
I know your account and checked it out over half a year ago. No, your stuff is not in any kind edgy. To the contrary.
It also is my opinion that silent removal is a sharty thing to do. About 75% of sales on itch are for adult games, according to ranking in browse. They should steal the cake from Steam not drive people to use Steam, Patreon, Subscribestar and so on. I would rather give money to itch than to patreon.