Yes it is, strictly speaking, nonsensical to speak of "true empirical contradictions", including the empirical consequences of special or general relativity - but that isn't the sense of "contradiction" to which philosophers appear to be referring to with the theory of relativity.
For what philosophers seem to be implicitly referring to here is an observer-independent transcendental interpretation of the theory of relativity that they are imagining in line with what their common-sense intuition about what science ought to tell us about a gods-eye perspective of nature.
Special relativity in being an empirical theory is, like with any scientific theory, only designed to account for empirical observations obtainable in the first-person. The theory shows that if our common-sense notion of causation is to be consistent without contradictory implications, then nothing can travel faster than the speed of light; SR says that for any two events that cannot physically influence one-another without interacting via faster than light signals, then it is impossible to say in an observer-independent sense which event occurs first or second, let alone whether they occur simultaneously. They have as it were, a "space-like" relation without a specific temporal ordering, a opposed to a "time-like" temporal ordering.
Hence if one interpreted SR transcendentally in the sense of trying to imagine its implications from a "gods-eye" perspective of the universe as whole, it does indeed imply contradictory states of affairs relative to our notion of causality.
Of course, this is a nonsensical interpretation of SR and forgets the fact that SR is a theory that is only supposed to be meaningful *relative* to a given frame of reference and to describe a frame of reference's relation to "nearby" frames of reference for which the ordering of causation remains unchanged.
But then what of General Relativity? Does it improve matters by giving us a god's eye perspective? i think not. For it allows different frames of references for which events are either seen as time-like or space-like. For example:
https://physics.stackexchange.com/questions/339235/causality-in-general-relativity
I'd like a more astute philosopher of science to chime in here, but I understand that general relativity only avoids 'transcendental contradiction' in the scientifically unimportant sense when it is interpreted either
1) anti-metaphysically, instrumentally and solipsistically as a computational device for describing only a particular individual observer's experiences and hypothetical observers within his conceivable future.
or
2) as a global metaphysics without any interpretation in terms of first-person experience..
I imagine idealists to accept 1, and realists to accept 2.