Binary built on different platforms with exact same tools different?

[Rick Mann]

Hi. I've built an xscale-elf toolchain from gcc-4.2.2, binutils-2.17,  
newlib-1.15.0. I've used the exact same build procedure on both Mac OS  
X 10.5 (gcc-4.0.1-based) and Cygwin (gcc 3.4-based).

Then I built our code and stripped the resulting binary with objcopy  
on each platform.

Both binaries seem to run the same.

However, cmp shows many differences between the two resulting  
binaries. Here are a few:

$ cmp -l ~/h h | head -10
      77  21  63
      81  32  74
      85  27  71
      97 370 220
      98 162 163
     101 134 364
     105 134 364
     141   4  15
     143  55 240
     144 345 341


Are these differences something to worry about?

TIA,
Rick