Ok, so here's the way I'd look at it (I just had to give this advice to a family member, so hopefully this makes sense...)
1)
Residencies = The jury's still out on which of the two options opens/closes more doors, and ultimately someone comes up with the argument of "well if you have a 260 on the Step I you'll be just dandy" which is hilarious cause sure, it's just that easy! Anyway, it's true that DOs can get into an MD residency OR a DO residency, but they do have to take both the USMLE and their version (I forget what it's called...) in order to have both options, and apparently it's not as simple a process as SDNers make it out to be. On the other hand, as people have mentioned, residency spots in the US are staying the same but med schools are reproducing like bunnies, and the main effect seems to be to kick out the IMG's. Unfortunately, if you think about it, it makes sense: residencies will first pick people who go to med schools under the big AAMC umbrella because they're all pretty standardized, and then the DO schools that are standardized according to their own rules, and then they'll pick people whose training they had no control over.
Oh by the way, as far as reputation and stigma are concerned, I consider them to be about equal for both options, although it's more geographically dependent. There are some locations in which there are no DO schools and people don't know what DOs are, and there are some locations in which people are very "smart shoppers" and will straight up ask you where you went to med school (and wont trust you after you mention a school in the islands). It totally depends. I've never worked with a doctor from the islands, but I have seen two DOs at 2 separate academic centers I worked in. One of them was a resident, and the other was an attending. I do have to mention though that the attending (this was at Stanford, by the way) was trying to get a tenure-track position elsewhere (UCSF) because the Stanford position was only for 2 years and was basically dead-end. When she met with our director, he told her that the UCSF people were probably not going to take her because of her "alternative training" which pissed her off to no end. Of course, as I said, there were no island doctors there either, fwiw.
2)
Clinicals = DOs definitely have it here. Yes, IMGs can do clinicals in the US, but first of all, I've heard Ross has major issues trying to place their gagillion students into third and fourth year clinicals which can often result in extremely sub-par experiences. As for other schools, including SGU, things are still pretty complicated. At US-MD schools (and I'm guessing DO schools as well), we're trained at a very limited number of university-run hospitals and maybe a corollary or two, the idea being that we're going to be under the purview and umbrella of our own home institution. Again, this means tight control over our training. From my point of view as a med student, this is something I very much want in my education because I won't feel like I'm constantly being thrown to the wind, changing hospitals and policies and people every month or so. You get stuck with teachers who don't want to teach because- hey- they're not working at a university! Not to mention the fact that the hospitals they usually send you to tend to be the poorer, more crowded ones where you really don't get a whole lot of attention. You want attention as a third year. You want to be actively taught things. And you want residency directors to know where you've trained and trust that you learned what you were supposed to learn.
3)
Lifestyle and location = from what I hear, the islands where these schools are located are pretty rustic. We're talking super-expensive bottled water, cockroaches the size of dessert plates, and only one kind of tampon at the convenience store. Sure, that's not exactly living in the woods, but if you're used to all the lovely conveniences of a massively stocked grocery store 5 minutes away and 20 different types of restaurants in your area, it can be kind of a painful adjustment. I could probably rough it for a while, but with the stress of med school, I feel like not being able to find Half Baked cause it didn't come in with the latest shipment, or having an iguana in my bathtub might just drive me over the edge. Not to mention issues with internet connections, cell phones, possibly unfriendly locals who think you're just some rich spoiled kids, and the fact that your loved ones have to get onto 3 different flights that only fly on certain days in order to come visit. Med school is tough as it is. I can't imagine having those logistical issues to add to this mess.
4)
Support = this would probably be the main reason why I'd personally pick DO. Med schools here have a vested interest in making damn sure you graduate. That usually means lots and lots of support. They want to maintain high graduation rates and get lots of people into residencies. That also leads to GENERALLY not horrendously competitive student bodies, cause it really does you no good to try to screw over everyone else- it wouldn't really help you anyway. In the islands, the situation is different because they accept way more people than deserve to have a medical education. Some people there have no idea what they're in for and don't know how to study and can't take tests. It is in the school's best interest to take their money and then weed them out so the people who graduate from there are only the very best, since those are the people that might manage to get a residency- this keeps their match percentages artificially high so when we're looking at their website, we get to be like "oh look, they matched 88% of their graduating class!" (well yeah, but that's really like 40% of their entering class). They really don't have too much of a motivation to keep you there. You don't get to retake whole classes and whole semesters and whole years while taking "research time" the way you do here. It's sink or swim. And unfortunately, that leads to some brutal, BRUTAL competition as everyone tries to take those coveted graduation seats. Again, med school is hard enough. I can't imagine trying to live through that as well.
So yeah, I'd think long and hard about your decision. One thing most people don't mention (probably cause it's awkward) is that you're in this mess for a reason. I'm not judging, I could very easily have been in an equal mess last year. But the point is, chances are some part of your application was weak- be it your grades, your MCAT, or more likely a combination of the above. Either way, while I'm sure you've turned a new leaf and are willing to put in the work, you can't assume that you'll suddenly turn into a stellar student with a 4.0 gpa and that your lower MCAT will become a 260 on step 1. You may have crappy study habits, or be a crappy test-taker. Considering all these things, you want to take the road that will give you the most support and the least amount of stress so you CAN change this stuff around. Hell, an SMP would be a good idea, since you'd get to see the med school workload without actually having it "count". I wouldn't pick an option cause it's the quickest or easiest, cause there's nothing quick or easy about our education. I think you have to be very honest with yourself about all the stuff I mentioned and figure out what works best for you.