Your trapezius and arms muscles are over developed as compared to your deloids thus giving you a greater angle from your neck to your deltoid. This is what is causing the shoulders to fit so poorly. The waist supression only accentuates this as it forces the shoulder of the suit to it's maximum extension, exacerbating the fact that there is nothing there to provide support to the sleeve of the jacket. This may also not be a fault of your workout regimen, your body may just be built that way, I don't know for sure but the current fit of this suit makes you look that way.
Lets examine the TF model you constantly point too (which indicates you want to look like him, despite your protests to the contrary, but I digress...)
Note here that on the right shoulder of his suit you see the exact same crinkle problem that your suit seems to be experiencing, albeit to a lesser degree. My theory is that this is because Daniel Craig has a similarly overdeveolped trapzius relative to his deltoids, although less so than you.
Note on the photograph on the right he clearly has a large angle from the ouside curve of his deltoid to the top of his trapezius. Clearly the shoulder of the suit is to fault for the crinkle in the shoulders not Daniel Craig's physique. Thus I conclude that you sir, are simply not built for TF. No amount of tailoring will make you fit into that line, short of having, as someone said, "massive shoulder pads inserted into the shoulder. However this would completely destroy the TF look you are going for. I think the following picture of Craig has him in a particularly well fitted jacket
Note the softer more rounded shoulder perfectly complements his body type, granted this is from the Layer Cake
premire when he was less bulky and more lean, but as you can see the shoulder fits very well. TF is more suited (please forgive the pun) to someone like Chuck Liddell, with very broad shoulders yet a small angle between outside curve of deltoid and top of trapezius. Observe:
In conclusion, the suit does not fit well, and will not fit well short of genetic alterations on your part or "TF style" destroying shoulder pads. Of course if you don't care that your $3.5k suit doesn't fit and just want to be able to tell girls at the holiday parties that you're wearing Tom Ford then you're fine. However with the waist supression of the coat giving you Huge Hips/Ass Syndrome, you will look absurd