In Holly's flashback of his time in Efrafa - which occurs long before the other rabbits have even heard of Efrafa - Bigwig can be clearly seen talking with the Efrafan rabbits (this was taken from a scene later in the movie).
In a wide shot of Bigwig spotting Hyzenthlay and Blackavar in the distance, they appear as two rabbits with normal, erect ears. In the next shot, Blackavar's ears are shredded and drooping, as they should be.
After Bigwig is rescued from the snare, thanks to having the wooden peg dug out of the ground, there's a wider shot showing the snare and the wooden peg. There should be a hole near the peg to note that rabbits had just dug it out of the ground, but no hole appears. All you see is the peg lying on the ground.
At the beginning of the film, Fiver finds a smoking cigarette. This means that men have been in the area within the last ten minutes (at most.) Yet all the rabbits are happily outside their holes, and Hazel is happily munching grass only a few feet away. The smoke smell alone should have put everyone on high alert, in addition to any lingering "man smell".