The magazine disconnect is incredibly easy to remove on the SR series pistols. Assuming that hasn't changed on these, then that isn't a concern. If you don't want it, you can remove it in a couple of minutes...and, you can put it back in just as quickly and easily, if you ever need to send the gun in for service.
The cheapest regular price I can find locally on SR9s is $415. If the SR9e sells for $350, and I have to pay $40 or more for a 2nd magazine, that's not such a bargain over the standard SR9 pistols. If it sells closer to $300, which is about the price of S&W SD9VEs in my area, then it will be a pretty good buy because of the better trigger, compared to the SD9VE. S&W does include two magazines with the SD9VEs, though.
I do like the fact that it doesn't have the LCI. I could care less what kind of box it comes in. I actually like the look of the slide serrations better on the SR9e over the SR9, but I'd like to see how they feel. The other two things to consider in person are the sights and finish. I'll be interested to see one of these guns in the case!