I've had the same problem with flex, it's a limit to the quering, which ties to trying to speed up results... I created a bypass, by looping through queries, going with the max 500 points, i query the object id's < 500, and then continue to query, each time increasing by another 500... i loop through these results until the result count is 0... if you add up all those results, you get all the features.. of course, this is done with queries, and is not tied to featurelayer.