qgis - Strange distance measurements in distance matrix

I'm trying to create a distance matrix between two point shapefiles in QGIS 2.6. Both are in WGS84 UTM Zone 30N co-ordinates (and so is the project file), but the distance matrix returns values such as 5673346.938, instead of expected numbers of between 1 and 5km.

I saw a similar thread mentioning disabling 'on the fly projection changes' - I've done this, and no change. Threads already checked: Distance Matrix QGIS

Unable to obtain linear distance matrix

Here are samples of the two shapefiles I'm using, stripped down to just ID and location. http://www.datafilehost.com/d/32dc1dc6

http://www.datafilehost.com/d/61fff8f3