Comment 17 for bug 732539

I can confirm that with 2.6.34.7-59.bz502974.fc13.i686.PAE linked above the system resumes from sleep at 1000Mbps.

As for whether autoneg should be enabled rather than saved/restored, my 2c: given that it's not something you set accidentally, we have to assume someone knows what they are doing, so it may be bad form to second-guess the user and force it back on. But hey, I'm good either way, my problem is solved.