Water water everywhere AKA Leaking windows

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Van-essa

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Good evening everyone. I had hoped that I could post an introduction and contribute to the community before asking for help but now I am desperate. So here goes...

Back info: 
We have had the van for less then a month and have removed everything from the inside. The van is a 2001 ford e350 v10 15 passenger van. I[font=verdana, geneva, lucida,]t appears that the van was in an accident on the driver side of the van and repaired (did not know this when it was bought)[/font]

 Quickly into our interior dismantling I suspected that there was a leak in the roof. I found this tiny hole on the side of the van near the top where someone drilled into the drip rail and hit the side of the van with the drill. I did a temporary fix just in time as it rained a couple days after the fix. The other morning when I went to investigate the leak situation (in anticipation of patting myself on the back) I was greeted by a puddle inside the van 
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I used a hose on the side window while my girl friend sat inside the van. She was treated to a beautiful waterfall from the window. It leaks bad at the top of the rear side stationary window. We thought that sucked enough but then found that the side pop out window on the same side also leaks badly. We sought some advice and got some butyl tape and stared to attack the job, but were quickly shut down again. we discovered 5 windows leak, one has no screws/bolts holding it in (it is mounted with something like a windshield adhesive, and all the leaking windows appear to have been replaced at some time and they all use an adhesive that is solid and makes it impossible for us to remove. 

We wanted to fix the windows right but can't get them off without damaging the rubber. So we are looking at piping silicone around the window from the outside (we don't care about the appearance at all). We are also thinking about flex seal on top of that. We cannot afford to have a glass shop do 5 windows for us. I am cautiously optimistic about the stationary windows being fixed with silicone but I am thinking that the pop out window might not work, even if we just use the silicone at the top. 

We would appreciate any help that we can get thank you so much in advance. 
 
There is flowable windshield sealer made by McNett that MIGHT work.

The problem with windows installed that way is that there's a good chance that the leaks are caused by the metal under the rubber gasket rusting. At which point all the sealer in the world is not going to stop a leak because the metal will just keep on rusting away.

The most dependable way to stop the leaks and prevent future leaks is also the hardest to do.

Remove each window, clean up the area completely including any rust removal and body repair and then reinstall the window with new gasket if that's the type of window. If it's an RV style window then removing it, cleaning up the area and reinstalling it with new butyl tape is the appropriate technique. Removing those windows that are installed with a rubber gasket (no frame) is something that is probably best left to professionals as it requires using those big suction cup things as there is no frame to hold on to.

You mention some previous attempts at sealing the windows. You may have to use a chisel to remove all the various 'remedies' that have been applied.

Perhaps the best thing is to find a mobile glass company to remove the windows for you in stage one. Stage 2 would be for you to do all the necesary work and then stage 3 have them come out and re-install the windows with new gasket.

Not cheap by any means but the alternative is to always be worried about which window will start to leak next.
 

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