Which $sth statement is taking the longest? What do your execution plans look like? The bottleneck is going to be the database, but the problem is almost always in your code. (Sometimes, indices can help with SELECT statements, but your DELETE statements will drag if you have too many.)
One possibility is to drop all indices that aren't related to your SELECT statements, do your DELETEs, then reindex the tables when you're done. Oh - OPTIMIZE and ANALYZE before and after can help out, too.
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