At the end of the Chilean Civil War of 1829–1830 the government decided to buy the brigantine-schooner Flora to confront a new attack of insurgents.

It brought Claudio Gay to the Juan Fernández Islands and realized hydrographic survey at the coasts of Chile.

In August 1836 the Chilean insurgent Ramón Freire, with the support of the government of the Peru–Bolivian Confederation, sailed bound for Chiloé to promote a revolution in Chile but he was betrayed and captured.

The Colo Colo remained in Arica and the Aquiles continued to Lima and captured the schooner Peruviana, brigantine Arequipeño and the barque Santa Cruz in El Callao so easily and quietly that the local authorities did not realize until next morning that the Aquiles set sailed away carrying with it the Confederation's navy.

On 14 November 1837, a naval Confederation force tried to liberate Ramón Freire from Juan Fernández Islands.