He had the right to sell fruit and vegetables from the garden, which proved a necessity in the circumstances that Danvers died and the English Civil War meant that his estates were sequestrated.
[2] In 1648 he published an anonymous catalogue, in alphabetical order, of sixteen hundred plants then under his care ('Catalogus plantarum horti medici Oxoniensis, scil.
Latino-Anglicus et Anglico-Latinus'); this was revised in 1658 in conjunction with his son, Jacob Bobart the Younger, Dr. Philip Stephens, and William Brown.
He died on 4 February 1680 at the garden house, and was buried in the churchyard of St Peter-in-the-East, where there is a tablet to his memory.
He was married twice, leaving houses to his sons Jacob and Tilleman (or Tillemant), and legacies also to six daughters.