You can use a range of programs to master in. I actually use Harrison Mixbus for a lot of mastering and there are various reasons for it.
It has a beautiful sound and just makes your mixes sound better for being inside it.
The EQ is very cool and is
different on Tracks, buses and the main stereo buss.
The Harrison mastering plugins are also excellent.
You can certainly do it in Sonar and Studio One is also cool for mastering in that it offers a special mastering page.
I still believe that a carefully controlled mix will not be effected at all much with limiters and compressors over the mix. The key is using VU meters during the mix process and understanding the ballistics of the VU meters and knowing when things are good and not so good. I bet if a mix changes a lot under the limiter or compressor when you put a VU meter over that mix you will see why just by the movement of the meter and how it dances to the music. Great mixes just make the VU move in a certain way. And compression or limiting does not really change that too much. Although it is also very interesting what happens to the VU meter ballisitic the moment you do put a compressor over it. When the compressor is not well adjusted the VU meter ballisitic changes a lot.
(in a bad way) When it is set right the VU goes back to dancing correctly like it did before the compression went on.
(in the top part of the meter range that is. What happens is it should just not drop down so quiet that is all) You can almost mix with a VU meter and you can certainly adjust a compressor very well with one too.