In 1627 and 1628 he commanded the King's ship Rainbow. By December of the latter year he had returned to the service of the EIC, being given command of the Charles. Despite again being censured for private trading on his return to England in April 1631, he was given command of the same vessel in 1632. From the carelessness of the master of the Swallow, the Charles was burnt at Surat in January 1633. Weddell lost his entire estate aboard the vessel, while the master of the Swallow returned to England in irons. The court refused to give him another commission and ship, instead ordering him to return aboard the Jonas.
