HERE GOES ANOTHER WATER SEPERATOR DISCUSSION
If the only problem you are having with the seperator is the drain-valve won't shut off, or is sucking air, there is absolutely nothing wrong with adding a ball-valve, or your favorite type of valve, in the rubber hose that drains the seperator.
With this valve shut off, the seperator will function as well as it did before the valve started leaking.
When mine started sucking air, many many years ago, I completely removed it and drove for hundreds of thousands of miles with no water-seperator whatsoever, and never missed it.
For my own part, I would tend to avoid those open-bottomed fuel-filters that require a seperate plastic water drain valve to be screwed into the filter.
Sooner, or later, you will be in a most inconvenient situation, and that plastic bottom is going to break, crack, or vibrate off; and, without a spare, what on earth are you going to do??
I searched around and found a replacement filter for the Cummins that is about twice the size and has a solid bottom with an integral water drain made on the filter.
Maybe a diligent search will yield a similar filter to fit the 6.9.