Time Machine Didn't Back Up

I have two hard drives that are both 2 Terrabytes. One is the main and the other is the Time Machine backup.
I just accidentally overwrote a Flash FLA file, so I selected it and ran Time Machine. There is no backup of this file even though it's on the main hard drive and Time Machine has been backing up every hour for months.
In fact, if I select the folder and check out Time Machine, it doesn't have a backup of the entire folder all the way back to the first week of April.
Yes, Time Machine is backing up, I didn't turn it off.
Does anyone have an idea why Time Machine would arbitrarily decide to not back up this folder? What happens if it runs out of space on the backup hard drive?
Thank you!

OK, I just checked the preferences and the Main Hard drive was put on the 'don't back up' list somehow. Weird. I must have accidentally did that. I'm backing up NOW!!

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