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Deep cleaning requires alcohol and a lot of caution. This type of cleaning is necessary when the motherboard has been in a filthy environment, or something was spilled on it. If you do it improperly, you can brick the motherboard.

For reference, I’ve only had to deep clean a motherboard once — when we bought a possibly damaged motherboard for a test build, and there was visible dirt on it. There are three computers used daily in my household, and we’ve never had to deep clean the motherboards we purchased new for them. 

Routine cleaning is something you should include as part of your regular computer maintenance schedule. It doesn’t require much special equipment, and you don’t have to remove your motherboard from your computer to do it. This is the only kind of motherboard cleaning that most people need to do.