Relativity isn't even about clocks, and is practically difficult to verify with any but the absolute best... its most common applications are related to radiation physics. The only conflict science has with philosophers is its role as a stumbling block for people with high verbal abilities and a belief that they don't have to know anything about the subject they're writing about. If they had the same attitude towards glassblowing or archeology they would have the same results.
Do you know of any completely physically correct theories?