Why would Ruger create a separate model and call it "Super" just for 44 Mag,
Gee, why would they? Because they could sell it???
I have a new model Blackhawk in .45 Colt 7.5" bbl. I also have a new model Super Blackhawk in .44 Magnum 7.5" bbl.
The cylinder frames are exactly the same size.
The differences between the Super and the Blackhawk are, the grip frame of the Super is longer, not a lot, but enough so grips are not interchangeable.
The Super has an unfluted cylinder, and the "Dragoon" style trigger guard. (for decades, the only way they came, today, I see Ruger offers the fluted cylinder and regular triggerguard on the Super).
The ejector rod housing and the grip frame on the Super are steel. On the Blackhawk, they are aluminum.
The hammer spur of the Super is lower, and wider than the Blackhawk. The Super has a grooved trigger, the Blackhawk is smooth.
I believe that the differences between them were done to make the Super easier (more comfortable) to shoot, mostly by adding a little more weight. The Super is several ounces heavier than the Blackhawk. Shooting .44 Magnum, extra weight is a good thing.
I've been shooting the Ruger .45 Colt since 1983. I had my days of experimenting with heavy loads, and settled on a 250gr SWC at just short of 1100fps. Does a fine job on anything that walks in America, if you do your part right.
I had a .41 Mag, ruger, Blackhawk, a 3 screw model, with the shorter barrel. Nice gun, nice round. On paper, it is approximately 15% less energy (and recoil) than the .44 Mag. In my hands, I could not tell the difference with heavy loads, but the Blackhawk was a very light gun, for those rounds. You might feel a significant difference, I can't say.
I would recommend the .45 Colt over the .41 Mag, in a Ruger SA. in a DA revolver, flip a coin. In a DA gun, I go to the .44 Mag.
If you get one of the .45Colt/.45acp Blackhawks, (which I did, even hot .45acp loads feel like plinkers to me in the long barrel Blackhawk), you get the extra bonus of being able to shoot a very common round, and in times of ammo shortage, that might be a worthwhile consideration.
I originally got mine with the idea that I would be able to plink without having to hunt for my ACP brass in the weeds (had a .45acp first). Made one small mistake, I shot a box of .45 Colt first. WOW!, I was hooked! In the 30+ years since, I don't think that Ruger has had more than 300 rnds of ACP, but several thousand .45 Colt have gone through it.
Unless things have changed, recently the factory .41 Mag comes in essentially two flavors, a 210gr LSWC at around 900fps and the full up magnum 210gr JHP/JSP at 1300+fps.
The .45 Colt has several more offerings available as factory ammo, from cowboy action target loads (think cat sneeze), to the standard load (replicating the original black powder ballistics), to the Buffalo Bore, and "Ruger only" level, from some boutique suppliers.
If you aren't going to handload, I would go with the .45Colt. But I DO handload, so that may give me some bias there....
The full house .41 does offer some advantages for longer range shooting, but neither is a "flat" shooting round when you get out there, and if you can learn to compensate for one, you could do it for the other as easily, so, I consider that a wash.
Choose which ever you think will make you happy. If it does, you're good. If it doesn't get the other one.