Sorry,I just read your post again and you did say you used "the proper clips".
These clips are designed without sharp edges and to prevent tearing the cv boot under heavy stress conditons .However ,your cv boot should be strectched out and with way more clearance than the 1-2 mm you mentioned!Are you sure the cv boot is same length?It maybe OE but .mistakes do happen and you should always check that the part you are replacing is 100% fit to the new part.
Merry Xmas to you too