I would think the best chance for this happen would be at the very beginning of the post-WW2 decolonization process with the Dutch deciding not to opt for an "All or Nothing" solution. Accepting the fact that the Japanese conquest means their DEI empire is living on borrowed time, the Dutch decide to spin independence into a process more favorable to their long term needs.
Accordingly, the Dutch in 1946 begin to do what France in the OTL's 1950s/60s would do to it's west Africa colonies: Deliberately short circuiting regional independence movements by balkanizing the territories involved into a series of nominally independent, post-colonial "Ruritanias" still closely linked to the colonizing power through protectorate agreements and "most favored nation" trade status.
The Netherlands begin the process by granting independence to the "edges" of their DEI possessions. Regions like Aceh, Borneo, the Celebes, and others which are the most "distant" linguistically and culturally from the Javanese are transformed into post-colonial "nations" strongly linked, overtly protected, and still somewhat slightly controlled by the Dutch just as "nations" like the CAR were strongly linked, overtly protected, and still somewhat slightly controlled by the French.
While this process played out along the "edges", Holland would keep a boot on the neck of the Javanese majorities on Sumatra and Java so, that when their inevitable independence occurs, they won't inherit the Dutch empire only to turn it into a Javanese empire, but instead will find themselves surrounded by a collection of previously independent "nations" who sole reason for existence is the fact they aren't Javanese.
Naturally, a series of Konfrontasi-type periods will take place along the borders Holland has fashioned, but this smaller, alt-Indonesia will be unlikely to prevail in many of them thus leaving a number of smaller independent nations, especially when it looks like empire building and especially when the smaller, alt-Indonesia looks the slightest bit "pink".