A study was conducted to determine the prevalence and causes of subclinical mastitis in goats at Goat Research Station (GRS), Bandipur, and National Livestock Breeding Office (NLBO) farm Lampatan, Pokhara. Altogether 61 samples including 43 from GRS and 18 from NLBO were screened for subclinical mastitis using the California Mastitis Test (CMT) reagent, of which positive samples were then aseptically collected in a sterile 10 ml plastic tube and cultured in nutrient agar. Culturepositive samples were Gram-stained to determine their type (gram-positive or gram-negative). In the case of mixed colonies, the culture was sub-cultured. The data were entered and tabular and graphical representation was done in MS-Excel 2010. Results revealed that 26.23% of samples were positive for CMT and of 122 active teats tested, 19 (15.57%) were positive for CMT. Similarly, 23.3% of samples from goats of GRS, and Bandipur were CMT positive whereas 33.3% of samples from goats of NLBO, and Pokhara were positive. On the other hand, the prevalence of subclinical mastitis was 27.27%, 31.03%, and 19.04% for Saanen, Boer, and cross-bred goats, respectively. Considering the samples collected from GRS, 75% were culture-positive of total cultured samples while those from NLBO showed 57.14 % culture positive. In the meantime, overall samples showed 68.42% of total cultured samples to be culture positive. Out of 12 culturepositive samples, 92.30 %( 11/12) were gram-positive and only 7.69 %( 1/12) were gram-negative.