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. 2520. 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.
Baros, chialoup, destined towards Cheribon for a cargo of cotton yarn taking with 3,500 rijksdaalders as payment 4 April 1700, arrived at Batavia coming from Cheribon 23 April 1700
Boor, small fluyt, departed Batavia towards Bengal 26 April 1700
Cauw, frigate, destined via the West Coast of Sumatra towards Bengal 27 April 1700
Coning van Bantam, yacht, departed from Batavia via Malacca towards Ligor 17 April 1700
Eemland, destined towards Japara for a cargo of timber 15 April 1700
Emmenes, fluyt, arrived at Batavia coming from Japara 22 April 1700
Fliet Freguat [=Frigate], British ship, arrived at Batavia coming from China 19 April 1700
Haas, fluyt, arrived at Batavia coming from Bengal 5 April 1700
Hobre, schip, destined towards the East Coast of Java for a cargo of timber 5 April 1700
Hoen, galliot, destined towards Bantam 25 April 1700
Moercappel, yacht, arrived at Batavia coming from Ceylon 17 April 1700, departed Batavia towards Tagal for a cargo of timber 28 April 1700
Nierop, fluyt, arrived at Batavia coming from Tagal 20 April 1700
Peperboom, fluyt, destined towards Ceylon [Sri Lanka] 27 April 1700
Schelde, ship, destined towards the East Coast of Java for a cargo of timber 5 April 1700
Swaag, fluyt, arrived at Batavia coming from Bengal 5 April 1700
Trumbal Galley, British ship, arrived at Batavia coming from England 18 April 1700, departed Batavia towards China 29 April 1700
Vossenbos, fluyt, arrived at Batavia coming from Ceylon [Sri Lanka] 24 April 1700
Wind, frigate, arrived at Batavia coming from Mallabar 24 April 1700
