No. Just because they don't cram it into every 1st party 3DS game (like they did with motion and the Wii) doesn't make it pointless. Mario Kart DS didn't use the DS' touchscreen, and Super Smash Bros. Brawl would be better off without motion control. You could say a similar thing about Sony and Sixaxis control, or Microsoft and Kinect. Just because they don't try to force somthing on us, doesn't make the feature pointless. 

That it adds nothing to the substance of a game, movie, or TV show is what makes it pointless.

Okay first all of sixaxis didn't really go well and how is MS not forcing kinect on people? Secondly those are all control options, which effects gameplay, 3D is not a control option. Nintendo not putting 3D in a 3DS game is basically them saying this game would not benefit from 3D, and the fact that they even consider not putting it in means they already don't think it benefits games, or that people don't even want it. The best decisions Nintendo made when putting the 3D in is the off switch.

Not entirely true, the movies that do do 3D well it's a different experiance watching it without, and some (very few) of the 3D games on ps3 people have said has made it much easier for them to judge depth and that it looks and plays great, and it's not like there isn't arguments for 3D in general being pretty close to pointless. In the 3DSes case it's just espeically pointless.

What exactly do you mean by substance? Content?

Sixaxis- Whether or not it actually worked with the PS3, the functionality was still there, and was supported in some 1st party PS3 games.

Kinect- How are they not forcing it on us? By selling standalone 4 and 250 GB 360s without Kinect, and, not making every 1st party game Kinect-only. 

3DS- Just becase they may leave 3D out of one game doesn't mean they are giving up on it altogether (like you are implying). If a game won't benefit from 3D, then why force it onto every game? Another good comparison would be WiiMotion Plus, or, again the DS touch screen in Mario Kart. I'd rather them release a top-notch game without 3D, then release somthing that was ruined by 3D. (again, motion in Smash Bros., and to a lesser extent, DCKR). The motion didn't ruin the games, but didn't do much for them either. 

Sixaxis- and eventually abandoned like Nintendo seems to be thinking of doing with 3D 

Kinect- What retail exclusive came out this year that doesn't use kinect? And 3D is in every 3DS it's not like it's an add-on.

What game does benefit from 3D on the 3DS?

Well, I'd imagine not. Depth adds no real benefits to 2-D sidescrollers, after all.

Basically. We've seen plenty of mediocre films in 3D since Hollywood went after the craze, and so far, it's hasn't magically made the scripts any better (firing Shyamalan when it was clear he was making The Last Airbender a piece of crap would have worked far better than that piece of crap 3D conversion). Conversely, the really good films would still be good in 2D, and DVD sales for a lot of them show that.

I picked up the Conduit from my shelf after a year without touching it, and immediately picked up the Gamecube controller then was like 'oh'. I had to search all my drawers for a Wiimote; I realised I'd only been playing Virtual Console, Mario Kart and Smash Bros. for a year and hence only had GC controllers attached.

I use my Wii as a Gamecube.