Mail keeps adding legitimate mail to Junk folder

I have an Exchange account (running on Exchange 2103) set up where Mail keeps kind of randomly putting mail in the Junk folder, even though it's not marked as spam by our server or by the Mail app itself, and I have 'Enable Junk Mail filtering' UN-checked. I know it's the account on this Mac because if I quit Mail, this weird behavior stops.
I have the same account set up on two other Macs, running the same version of the OS and this is not happening.
This behavior started just after I rather agressivley wiped out all traces of my email accounts on this Mac because of other odd issues I was having with this Exchange account (again, ONLY on this one computer).
ANyone have an idea of how to fix this? As this is my main work computer it's a pain to be unable to use email (I can use Outlook or OWA but I'd rather carve emails on stone tablets than use those apps.)

Upon examination of my junk folders, I think that this is happening in my Gmail account as well. Stuff is appearing in there that aren't marked as junk either by the Mac or by Gmail.
Most curiously another Exchange email account (this one running on Exchange 2010, not 2013) is showing no sign of this behavior.

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Mail keeps adding legitimate mail to Junk folder

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