Hi,
I'd have to say "Yes, they are better" - and I'm talking about WinUAE here...
You can have every Amiga model (assuming you have the ROM images) emulated almost to perfection.
If you do run into compatibility issues, WinUAE is so tweakable you're pretty likely to be able to get 99% of things running.
I too have found that it's actually more compatible, since it's much more configurable than a 'real' Amiga. I sold my A1200 ages ago and now only run WinUAE.
It's great to be able to run a 1280x1024x24bit workbench faster than any Amiga ever could. And connecting to the internet via my PC's cable modem couldn't be simpler!
Along with Google Earth, WinUAE is one of the most amazing pieces of software for the PC. It gives me a warm fuzzy feeling to be able to 'boot-up' my old A1200 config and have it running much faster and better looking in 'software' than it ever did in 'hardware'!
Cheers,
Mike.