1. Phanteks right now has the best fans on the market, taking the crown away from Noctua some years ago. If you take the Noctua fans off a Noctua cooler, and replace them w/ Phanteks, temps drop by 6C at the same 1200 rpm. If you let the Nocs go to full speed, (1500 rpm), the Phantekls still keep the CPU 3C cooler.
http://www.overclockersclub.com/reviews/phenteks_f140/3.htm
Here's silentpcreview.com's top 10
http://www.silentpcreview.com/article1345-page7.html
Phanteks PH-F140HP/TS
Noctua NF-A14 FLX
Noctua NF-A15 PWM
Noiseblocker B12-2
Noctua NF-P14 FLX
Scythe Gentle Typhoon 120-12
Noiseblocker M12-S1
Corsair AF120 Quiet
Corsair AF120 Performance
Thermalright TR-TY150
2. As for having full control .... do you mean individually as in 4 fns at different speeds or controlling all 4 fans at the same speed ?
3. Your MoBo has
https://www.newegg.com/Product/Product.aspx?Item=N82E16813157586
1 x CPU Fan Connector (4-pin)
1 x Chassis Fan Connector (4-pin)
A 4-pin header does not necessarily mean it's PWM fan; we have never built a box w/ a MoBo in this proce range so I don't wnat to guess what features it provides... read your MoBo manual. Typically however, at least in the > $100 price range, both PWM or DCV control is provided in the BIOS since the Z97 platform arrived.
4. Your CPU cooler should be plugged into the "1 x CPU Fan Connector (4-pin)" and controlled via that fan header with whatever options are provided via your MoBo utility. All MoBo manufacturers have such a utility tho I don't know if it can be enabled on that board.... again this will be defined in your manual.
5. For the (4) case fans, you can drive (4) fans off a single MoBo header provided you don't exceed the header's 1 amp rating. Four Phantels 140mm 1200 rpm fans would 0.56 amps well below what I'd like to load a header at with a 1200 rpm fan (0.83 amps to allow for inrush current). You can control these fans using a Phanteks Hub.
https://www.newegg.com/Product/Product.aspx?Item=9SIA4RE5032993
Again, it will work with either a PWM or DCV signal from the MoBo header and with just the (4) fans, you do not need to connect the auxillary power cable.
EDIT:
The S340 case has
120mm Fans
Front: 2 x 120 / 140mm
Top: 1 x 120 / 140mm (1 x 120mm included)
Rear: 1 x 120mm (included)
I know Im gonna sound like a fanboy here but I would suggest ...
if you didn't already buy the case .... (not sure if you meant "my existing case" or "my planned case" .... that, before pulling the trigger, you take a look at the Phanteks Eclipse P400S Silent Edition that all the review sites are raving about...It comes with more fans, equipped for "silent running", built in LED system...and it comes with two Phanteks fans included ... 5 year warranty, multiple color and color combo options, tempered glass side panel, greater GFX card and cooler options and to my eyes, far better aesthetics ... and it's cheaper.
Most of all it comes with two "best on market" fans.
The perfect value silent case
https://www.youtube.com/watch?v=mzXmR9QerOY
Nailed It
https://www.youtube.com/watch?v=-aJzKiizvJI
Killer Budget case
https://www.youtube.com/watch?v=XQvWeqo7XBw
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