As much as I'd love to provide a proper 3DVision fix for this game, it's got a new and advanced game engine, which makes it very difficult to fix. Fortunately with a custom made Nvidia Compatibility Mode profile, the game actually looks pretty darn good, and is likely the best 3D solution we're going to have for some time.
Even with the profile, there were a few issues that would cause certain objects to appear flat, and would make the scene lose it's sense of depth. Fortunately, that's where 3DMigoto comes in, and with it was able to disable 2 shaders which caused this to occur, with the only loss being the pulsing glow on openable crates/bags/etc (they still have a highlighted outline though, so you can tell which ones can be interacted with).
Update: I've updated this profile to include the official SLI bits from Nvidia driver 364.72
2. Extract zip file to install directory that contains TheDivision.exe
3. Follow Helifax's helpful tutorial HERE to be able to import the following profile:
Profile "Tom Clancy's The Division"Serzhas was helpful in providing a good summary on how to do this in the comments below. Thanks Serzhas!
Setting ID_0x005f5a32 = 0x00000003
Setting ID_0x00a06946 = 0x280000f5
Setting ID_0x1033cec2 = 0x00000002
Setting ID_0x1033dcd3 = 0x00000004
Setting ID_0x50166c5e = 0x00000000
Setting ID_0x701eb457 = 0x2241ab21 InternalSettingFlag=V0
SettingString ID_0x7049c7ec = "웪ꑌ" InternalSettingFlag=V0
SettingString ID_0x704d456e = "쪳⃟쀰�㒺僪娟簹鹼瀣딅ᤶ厘�빁뼝褧籝譯⑉贼㱅矻粁ꗪ熟胕㖩뫨뚄ᮈ쐙낟锑䭽乂솲ᢺ譬壻媦ͬ嚈ᚕ誚㉤跮軤栵䂆驘윜폱턇㛨뉟핾鏰뫱" InternalSettingFlag=V0
SettingString ID_0x7051e5f5 = "籪鸙" InternalSettingFlag=V0
Setting ID_0x708db8c5 = 0x5c3300b4 InternalSettingFlag=V0
Setting ID_0x709a1ddf = 0x4b1cd969 InternalSettingFlag=V0
Setting ID_0x709adada = 0x37F58557 InternalSettingFlag=V0
Setting ID_0x709adadb = 0x3F7EEFFF UserSpecified=true
SettingString ID_0x70b5603f = "榛鳈⏙ꢗ" InternalSettingFlag=V0
Setting ID_0x70edb381 = 0x24208b6c InternalSettingFlag=V0