That's a no no
Brent,
From the scant information you supplied, I can't guarantee that the windshield area is where the water is entering your car, but if that is the case, you made a very bad choice of sealer. :ugh
Silicon should never be used to seal out the weather, especially around the windshield weatherstrip. I have seen windshield frames completely rotted away because of the humidity that collects in and around this type of sealer.
Also you mention " around the windshield " well in a lot of cases, water enters between the rubber, and the glass, not the rubber and the metal windshield frame. Check with your local parts store, and get some sealer that is made for sealing windshields ( tip, it never hardens, stays soft forever ) and after cutting a small portion of the tip, insert it forcibly between the rubber and the glass, and while holding it at a 45' angle, run a bead completely around the perimeter of the glass. This will completely eliminate any chances of water penetration in this area.
As far as the frame itself, it is also very important to use the same type of sealer, to cut down any water penetration before installing ( you didn't mention if it was in place or not ) your stainless trim. I have seen restorers use a hardening type sealer ( an example would be urethane ) and later, the trim was completely destroyed, when it became necessary to remove the trim.
Once your stainless is completely removed ( it has no sealing properties BTW ) partially fill the gap between the rubber, and the frame with a generous bead of sealer, making sure that there is plenty of sealer in and around the stainless trim retaining clips, and then carefully re-install your trim.
If you are not comfortable in doing all this yourself, for God's sake stay away from the modern glass shops who in most cases, have not installed or sealed any of our 40 year old cars. Try to find a restorer, or installer, who has experience in these type of windshield installations.
Good luck, call or e-me if anything is not clear
regards
Bob