Well, I for one would never go for an "all in one" unit...no matter what the brand. Too restricting for upgrades, or getting one piece replaced should it fail, or something bigger and better comes out.
If I were buying a new Home Theatre system I'd make sure it was at least a 6.1 system and a minimum 100 watts per channel. Remember: wattage isn't just about volume, it represents the amp's ability to produce those dynamic thumps and peaks during action movies. A low wattage amp would cack out...
I'd definitely also look into the new blu ray players. That is the latest and greatest and allows for true HD playback from a dvd. Any of the upconverting players while great, are not "true" HD.
As stated, Bose are way overpriced and overrated. Sure you can get some great sounds from a small speaker package but you're going to pay for it. Plus I've heard a few of them cranked and they DO break down and distort.
I have infinity speakers 5.1 and am really happy with their clarity, dynamic range and ability to reproduce everything I've thrown at them.
I'd stick with any brand name of amp that has the features you want. They're all pretty good these days. Pioneer does make a reference series of Home Theatre that blows away just about everything else but you're going to pay a price for that. One feature of their reference series is their auto tune feature where you put a mic in your normal seating position and it tunes the system to properly function in surround mode.
The best advice I ever received when learning about home audio is this: Listen to THE system, if YOU Like the way it sounds then that is ALL that matters. Never mind specs, dynamic range, brand name, style, etc etc All that means nothing unless YOU like the way it sounds....
BTW: DON'T buy a system until you've heard ALL the components hooked up together (ie: don't buy speakers until you've heard them through the amp that you're going to buy) and DON'T listen to them in a room full of other speakers. The other speakers will affect the sound by either muffling or enhancing some of the frequencies.