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Most anomalies I run into I can't do anything about because I am low level.

I wasn't sure 100% what you meant by this yesterday, but when I was playing today I saw the message that pops up when a spell fails to overcome a confoundable, and it talks about boosting your level. Do you know you can try to cast the spell again? That message doesn't mean it's impossible to get it, it's telling you what can boost your odds of success -- basically each attempt gives you a percentage chance to succeed, it's not a hard limit based on level (at least that's how it seems to work), so you can usually get them if you try a few times (although each cast of a spell uses up energy).

It usually gave me a second try, sometimes a third, before disappearing. It is possible I was just out of energy and didn't notice.
I was able to overcome one this weekend so it is not all the time. Over time I think I will be able to make progress, although I don't play much so it might be a while.