The National Archive of Indonesia published on her website tables of contents of the so-called Daghregisters (Daily accounts) of the Castle Batavia, HR no. 2506. Unfortunately they are in Dutch. In those tables you can find for instance information about the ships arriving at and departing from Batavia (nowadays Djakarta). I extracted the movements of the ships and vessels owned by the E.I.C. The dates mentioned below in the text are the register dates. See also on this weblog the notes dealing with cargo capacities and individual ships.
Arent, chialoup, arrived at Batavia coming from Jambij 16 March 1690
Baeren, fluyt, departed Batavia towards Ternate 8 March 1690
Faem, yacht, arrived at Batavia coming from Bantam with a cargo of pepper 1 March 1690
Meerl, small fluyt, departed Batavia via Ternate towards Banda 7 March 1690
Raep, small yacht, arrived at Batavia coming from Bantam with a cargo of pepper 8 March 1690
Rosingain, chialoup, departed Batavia towards Banda 31 March 1690
Snoeck, pantjalang, departed Batavia towards Bantam 2 March 1690
Sparwou, fluyt, departed Batavia towards Timor 8 March 1690
Swarten Arent, small yacht, departed Batavia towards Banda 5 March 1690
Zeijst, yacht, departed Batavia via Japara towards Macassar 31 March 1690