I'd rather play the original version. The 3ds version changed the graphics too much, in some parts the original artstyle is not the same at all. That's especially true for the characters.
Look at this pic for example :
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Link just doesn't look like
oot's link anymore. That's basphemous.
Then of course there's the controls issue. I found it harder to play it on the 3ds. You also have to know you move the camera by litteraly moving your 3ds ! Not very convenient for those who want to play relaxed.
The menu screen is also changed, and obviously the buttons displayed on the game screen are not the same as before. Very bad choice for those who preferred the original presentation.
If the blurry graphics really bother you in the original, the GC remake is also good. It just makes them less blurry, don't completely changes the artstyle like the 3ds does.