In a well designed, well bled, water loop, there shouldn't be any gurgling.
The only reason you ever really need two pumps is if you have two loops. For loop arrangement, the best arrangement is pump->waterblock(s)->radiator(s)->reservoir(s)->pump.
For pump quality, the best you can get for DC pumps are the Laing models. The Swiftech MCP355 is just a rebranded Laing DDC-12, and the Swiftech MCP655 is just a rebranded Laing D5. So, sometimes you can get a rebrand cheaper than the original. However, if you do buy a rebranded Laing, make sure you know what version you are getting. The later versions of the Laing pumps push more volume and make less noise, but often the rebrands are working with older versions. So, there is sometimes a good reason why the original is more expensive.
Personally I like to water cool the NB/SB/etc, but it's not really necessary most of the time.
As someone else mentioned, with GPU's the best route is to use full-coverage waterblocks..unfortunately, that is also the most expensive route. Expect to spend a good $100-150 for a good full-coverage waterblock.
The biggest benefit of reservoirs is to provide a fluid buffer, which is most important while filling the loop and letting it bleed the air bubbles out of the system. They also make filling the loop much easier.
For the radiator(s), for your use, I would recommend the Black Ice SR-1 series. They're optimized for maximum thermal transfer with low-flow (read: quite) fans. It looks like you should be able to fit a 2x120, 2x140, or possibly 3x120 (with some case modification) in the top of the Dragon Rider. If you put your HDD(s) in the 5.35" bays, you could pull out the 3.5" racks and open up enough space for a single 120 or 140 rad. Like most cases, it looks like you probably would not be able to fit a rad in the case at the back fan location, but you could definitely put one on the outside, like I have on Zeus.
One other thing; especially since you're shooting for a silent system, don't be afraid to spend money on fans. It seems a bit ridiculous, but my setup when I had all three rads in it was the quietest system I had ever had, and yet had more fans than I had ever had in a single system before as well (8 120's and 6 140's). That is in no small part due to the fans that I put in it...fans that it freaks me out a bit to say, I spent about $170 on in total. For 120mm fans, I would go with the Xigmatec's that were reviewed on the frontpage a while back. They have the best CFM/dBA ratio I've ever seen for 120mm fans.
You forgot about HDD water cooling.