Comment #9 on issue 3814 by [email protected]: Relations on MatrixElements are broken.
http://code.google.com/p/sympy/issues/detail?id=3814

I'm fine removing the MatrixSymbol from MatrixElement.free_symbols

though, really, [MatrixSymbol] should be a subclass of Symbol

A lot of SymPy assumes that Expr really means ScalarExpr. MatrixSymbol can't subclass meaningfully from Symbol until either this is changed (I don't think this is feasible) or Symbol does not subclass from Expr.

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