Agisoft Photoscan is a professional level app. that does the photo evaluation, point extrapolation and mesh building from a point cloud.  It has a very inclusive matching algorithm.  I took a series of shots of a rock which had a very dark side due to my camera exposure settings.  I reset the exposure levels and took additional shots of the shadowed area so that I could capture the detail and the software was able to match those with my previous set.  This is definitely a step up from the freeware software such as VisualSFM.  Agisoft also has quality settings for the point extrapolation.  The cost of that is time – on a high setting, it took approximately 25 min. to build the dense point cloud for the rock shown below.  The other consideration for this software is price – at a cool $3,499, it’s not for the casual user.

A rock generated from 2 sets of photo source with different exposure settings.

The rock object file dropped into Zbrush and also in 3DS Max with the default texture applied.