Let me clarify - 6S has all those features you have listed. SE came after 6S and misses those therefore Apple put different parts in that device making it "slower", "less features" etc. on purpose compared to their flagship 6S. -> they have crippled it a bit. If you don't like the word crippled then lets use different one - restricted.Actually no, not really.
I don't know what definition of "crippled" you are using, but it isn't one I know.
I am now using an SE, and can promise you that although it doesn't have 3D Touch, the front camera isn't as good, and the Touch ID is half a second slower, the phone doesn't appear to be crippled.
I'm not sayign that the SE is bad. NOT AT ALL! Its wonderful device for what it is. I'm saying that its not 6S in smaller size! Thats all!
Give me iPhone 7 in 4" factor and I'm all over it.