After the dealer looked at it a second time, they couldn't hear the noise. I ended up riding around with the mechanic for about 15 minutes when the noise showed up. He listened to the engine at various points and ended up with the conclusion that its some kind of vacuum leak, and it really isn't worth tracking down until I get a CEL.
After spending $350, I can't afford to have more work done if it's not necessary, and the mechanic definitely didn't think it was. For now it'll just have to be an annoying noise

Thanks to everyone who gave their opinion.