The authors studied choroidal thickness in 38 paediatric cases (76 eyes) with unilateral amblyopia to evaluate the differences between amblyopic and fellow eyes, and compare them with 19 healthy control subjects (38 eyes). Anisometropic amblyopia was present in 17 cases and strabismic amblyopia in 21 cases. The mean age was 11.31 ±3.01 years in patients and 11.84 ±3.17 years in controls. Mean best corrected visual acuity was 0.40 ±0.17 logMAR in strabismic amblyopia, 0.48 ±0.18 in anisometropic amblyopia and 1.0 ±0 in fellow eyes and controls eyes. Central macular thickness in amblyopic eyes (248.31 ±24.18um) did not differ significantly from fellow eyes (249.76 ±26.08) and controls (243.65 ±31.96). Subfoveal and parafoveal choroidal thickness was thicker in amblyopic eyes than fellow and control eyes. Type and depth of amblyopia did not influence differences. Peripapillary thickness was not significantly different between eyes. The authors conclude the amblyopia process may involve the choroid but not the macula.