Phalaenopsis orchids have a high commercial value, because of its beauty and it can be enjoyed throughout the year. This condition gives the impact on the increasing demand of the seeds. One of the ways of providing mass seeds is through in vitro clonal propagation. However, it is necessary to study the quality of regenerants of clonal propagation products to ensure the availability of qualified seeds. The aimed of this study was to test the quality of regenerants obtained from in vitro clonal propagation of Phalaenopsis using inflorescence stalk, shoot tips, and pith explants. This research was conducted at Tissue Culture Laboratory, Segunung Experimental Station, Indonesian Ornamental Crops Research Institute (IOCRI) from January 2014 to May 2015. The study used two treatments, varieties (Ayu Lestari, Ayu Pratiwi, and Karindra) and type of explant (inflorescence stalk, shoot tips, and pith). Experiments were prepared using a randomized complete block design with two factors and each treatment was replicated three times. The results showed there were no significant interaction between types of explants and varieties tested in all experiment stages. The best response was obtained using pith explants with 42.85% callus formation in the week eighth and nearly 100% callus can regenerate into shoots at week 24th with the rate of shoot multiplication up to 1.87 times. At week 32th the cultures formed planlets with an average number of leaves of 3.13 and an average size of 2.47 cm x 1.36 cm (length x width) and an average number of roots of 1.52 with average length reached 1.26 cm. Stomatal density has negative correlation with plantlet abnormality rate. Plantlets with the highest stomatal density and low abnormality were obtained in var. Karindra and plantlet derived from explant pith and shoot buds. After 8 weeks of acclimatization stage, the highest survival rate (92%) was obtained on the shoot originating from pith explant. This study proved that varietal differences did not have a significant effect on regenerant abnormalities, and the highest number of regenerant with good quality (low abnormality rate) was obtained from pith explant.