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Even if they were willing to change their ToS as soon as possible, that would probably take a good few weeks of back and forth with their legal department. But a notification of breach of licence probably comes with an "immediate action required" stick, so the only thing they could do immediately would be to remove the app from the store.

Apple's choice was to clarify the ToS, notably to explain if you are able or not to use iOS applications for professional use.

http://mailman.videolan.org/pipermail/vlc-devel/2010-Decembe...

They preferred to plainly remove it.

Or they could use their approval process to figure out that the licence was incompatible with their ToS.

Why should they pay to evaluate the license someone else chose?

Because they are using their software? And the the entity that built the app for the "App Store" was not the sole copyright holder of the software.