Nah, it's not a waste of money unless it was the ONLY crime he committed. At least this question can be run up the legal flagpole again. If, that is, he is convicted and appeals.
For the record, I'm opposed to Cons utional Amendment because I believe free speech trumps protecting the flag.
However, people who steal and burn other people's personal property need to be prosecuted. And, those who do so recklessly and without regard for the safety of others, should be vigorously prosecuted.