I've toured on both and I prefer my rim brakes over the disc brakes. But I am not comparing like with like. Simply what I have toured on.
I did a 800 mile tour on my mountain bike with hydraulic disc brakes. They were whatever came as standard on the Scott Scale 40 (2010 model), not exactly a bike designed to be tourer on (I also used it on mtb trails as well, complete with pannier rack!).
I've done a 8,700 mile tour on my off-road touring bike (designed for remote areas of the world) which has Rigida Andra 30 26" (559) MTB CSS Rim's combined with Swissstop Blue Brake Pads for Deore / LX / XT / XTR Brakes - for Ceramic & Carbide CSS Rims, neither the rims nor the pads are cheap). (sorry direct copy from the invoice made life easier for me)
Why - well part way into 2 week tour (thankfully in Denmark, somwhere with plenty of bikes, bike shops and very helpful cyclists) my disc brakes seized up completely. Denmark is not exactly mountainous... so no major decents or anything like that. The brake dust had built up so much (somehow) that it had effectively applied my brakes permanately on for me and the front wheel would no longer rotate. Perhaps I should have known this was an issue? maybe. But I have had no issues whatsoever with my rim brakes in 8,700miles on tour and more off-tour. I have not had to do anything except change the pads once and we have covered some long descents fully laden at speed (one in particular that comes to mind was upto 60kph fully laden for 2.5km and another which had a 700m vertical descent again fully laden in winter conditions (kit is generally heavier in winter)). We have never had to deal with brakes overheating, rubbing or squealing, only wearing out after 4,500 miles for the first set, the second set will last much longer and are already at 4,200 miles and don't even look worn.
But like I said, I'm not comparing like with like and both of those setups would stop on a six pence. Would I have disc brakes for a bike staying in the UK or even western Europe/USA or somewhere that is not that remote? Yes, happily, but not for anywhere else in the world. Its the same reason I have a steel tourer - ability to repair in remote parts.
So it comes down to the age old issue - personal preference and what the bike is going to be used for.