1. I have 3-stop and 10-stop filters. If I had to choose just one for nature/architecture it would be the 10-stop. The 3-stop is great for shooting fast primes wide open for outdoor portraits, and it does 'ok' for moving water if you stop down a bit. But for architecture shots where you want to blur out people, 10-stops is what you want - 6-stops likely would not be enough to get you to the 30-60 s exposure time. In fact, I didn't bother with an 82mm 3-stop (I have 72mm and 77mm), I just have a 10-stop in 82mm (also in 77mm).
2. The only real-world drawback might be increased optical or even mechanical vignetting, depending on the lens. For example, with the 16-35L II, stacking an F-Pro ND and a Slim CPL will add 2-stops of optical vignetting at 16mm f/5.6, and cause mechanical vignetting at 16mm f/2.8. OTOH, I often stack my 82mm Slim Käsemann CPL on my 82mm 10-stop ND on a TS-E 24L II, no problems there.
3. My 10-stop NDs are uncoated. If there has been MRC versions available when I bought them, I'd likely have done so (in fact, when I bought my 82mm 10-stop, the only one even available as a screw-in was from Schneider Optics, B+W's parent company). But, it hasn't been an issue. The coating makes cleaning easier, but you're not going to have to clean an ND too often. The main benefit of a multicoated filter is to increase transmission by reducing reflection (an uncoated UV/clear filter will cost you 8-10% of the light, a multicoated one loses <1%). But the whole point of an ND filter is to lose light... Yes, in theory there may be some extra flare (due to reflections between the front element and the back of the filter), but the coatings on the front element minimize that, and I haven't found it to be a real-world problem.
Hope that helps...