Frozen-thawed semen from six Boer bucks was pooled and used to compare the recently available commercial product CapriPure® with Percoll® for sperm quality. Sperm quality parameters such as sperm motility, concentration, membrane integrity (PI/CFDA), acrosome integrity (FITC-PNA) and mitochondrial activity (JC-1) were evaluated before and after sperm processing using CapriPure® and Percoll® density gradients. There was a significant reduction (P < 0.05) in the percentage of spermatozoa with intact acrosomes following Percoll® gradient centrifugation. However, there was a significant increase in the percentage of spermatozoa with high mitochondrial membrane potential in both CapriPure® (P < 0.01) and Percoll® (P < 0.05) density gradient centrifugation methods. The samples selected using the CapriPure® gradient achieved higher numerical values of membrane integrity, acrosome integrity as well as high mitochondrial membrane potential and showed a tendency for improvement of sperm parameters compared with the Percoll® gradient, suggesting that CapriPure® is a good alternative to Percoll® for goat sperm separation. However, further studies are needed to assess the fertilizing capacity of spermatozoa following the use of the CapriPure® gradient