I think in this case Rust and C code aren't equivalent which maybe caused this slow down. Union trick also affects the alignment. C side struct is 32 bit aligned, but Rust struct only has 16bit alignment because it only contains fields with 16bit alignment. In practice the fields are likely anyway correctly aligned to 32bits, but compiler optimizations may have hard time verifying that.
Have you tried manually defining alignment of Rust struct?
Have you tried manually defining alignment of Rust struct?