| Encyclia atrorubens (Rolfe) Schltr., 1918 |
| Encyclia baculus (Rchb. f.) Dressler & G.E. Pollard, 1971 |
| Encyclia belizensis (Rchb. f.) Schltr., 1918 |
| Encyclia belizensis subsp. belizensis (Rchb. f.) Schltr., 1918 |
| Encyclia belizensis subsp. parviflora (Regel) Dressler & G.E. Pollard, 1974 |
| Encyclia bicamerata (Rchb. f.) Dressler & G.E. Pollard, 1971 |
| Encyclia bidentata (Lindl.) Hágsater & Soto Arenas, 1993 |
| Encyclia boothiana (Lindl.) Dressler, 1961 |
| Encyclia boothiana subsp. favoris (Rchb. f.) Dressler & G.E. Pollard, 1971 |
| Encyclia brachiata (A. Rich. & Galeotti) Dressler & G.E. Pollard, 1971 |
| Encyclia brachycolumna (L.O. Williams) Dressler, 1961 |
| Encyclia bractescens (Lindl.) Hoehne, 1952 |
| Encyclia brassavolae (Rchb. f.) Dressler, 1961 |
| Encyclia calderoniae Soto Arenas, 2003 |
| Encyclia candollei (Lindl.) Schltr., 1914 |
| Encyclia ceratistes (Lindl.) Schltr., 1919 |
| Encyclia chacaoensis (Rchb. f.) Dressler & G.E. Pollard, 1971 |
| Encyclia chiapasensis Withner & D.G. Hunt., 1994 |
| Encyclia chiriquensis (Rchb. f.) Schltr., 1918 |
| Encyclia chloroleuca (Hook.) Neumann, 1846 |