if they are very very small changes it's okay. Otherwise it would make me change the city maps again.
There's a very important
islands in Indonesia that you missed in Civ IV RFC.
It's the center of Spice trade.
It's the native island of spices such as cloves and nutmeg.
It's what makes Spanish & Portuguese race towards the "India" to find this.
It's the legendary Spice Islands
It's what inspires the Treaty of Tordesillas
It's not the same as Sulawesi or Papua as neither both have such importance as these islands.
Then..
I presume the peak between Sumatra & Java is Krakatoa islands? It should be either attached to Sumatra or to Java.. actually in reality, there's not even space that big between Sumatra to Java
The narrow passage is only about 24 km (15 mi) long.
Here's the map. You can see the Krakatoa too there :
Ergo, the Javanese map needs to be moved 1 tile to the west.
Then, there will be an empty spaces enough to add another tile in the Nusa Tenggara region, 1 tile Southwest of the second island..