The chancel of the Third Order church has a vaulted ceiling with sash windows; unlike other chancels in Salvador, its ceiling is painted a simple blue with small decorative stars. The pavement of the chancel is richly decorated with lioz imported from Portugal; unlike other churches that feature pavements in strict geometric forms, it has curved tracing and irregular lines. The chancel arch is richly decorated in gilded woodcarving and has the Franciscan coat of arms at top.
