How to clean Eisenglass?

I have the same boat when you wash your boat do you remove all Esinglass. If not the hard soap you use to wash the boat and runs off on your Esinglass would leave a stain on it. How old is your Esinglass if its 3 to 5 years old it might need to be replace. Looks like all the stuff you use to clean it off you damaged it more than clean it. You could replace all your canvas and esinglass for around $6,000.

Is Eisinglass and Stratoglass the same material ?

My '98 Carver 355 had the same problem with the white gel coat strain from the sun deck roof. My eisenglass is about 7-9 years old but I was able to get all the white gel coat strain off with a product I bought at west marine. Sorry I don't remember the name.
The long term solution is to paint the sundeck roof. I used a one part epoxy from interlux and it has fixed the staining problem.

Isinglass and Stratoglass are basically the same thing, but the Strato is thicker and more durable. I doubt the white is from the fiberglass (you're lucky if it is). If it is fiberglass a liquid wax should take it off. It also means that you really need to wax your boat more often. Most likely someone used Windex or another glass cleaner on it. It turns plastic that milky color, and there's no repairing it that I know of. Regular Pledge is old school and good. I always use Plexus. Wash it with water (and mild soap if needed) and a soft sponge, and then polish it with the Plexus (or Pledge) like a piece of fine furniture. NEVER use a brush on it. That will leave hirline scratches all over it. The real benefits to using Plexus over Pledge are that it fills in some of the fine scratches left by a brush, and it stays on much longer than Pledge. I generally use Plexus about every 3 weeks.
While on the subject of caring for Isinglass, we've all seen what appears to be rust stains on it behind the stainless rails. This is not rust. It's burn from the sun reflecting off the stainless. Never let it touch the rails. They sell those little clips that snap onto the rails at most marine stores. They cost about $0.50 each. Use them or run Velcro down the outside of the rails to hold the Isinglass off. Isinglass can last 7 to 10 years if maintained properly or about 2 if not, and it's expensive.
Fianally, as winter is here, let me mention to never mess with Isinglass when it's cold. It gets brittle and will crack. Also roll, never fold, Isinglass.

I realize I'm late to the party here but hopefully this will reach others that run across this problem too.

In my opinion Toms original problem of white on the isinglass is most likely one of three things. 1. Oxidation runoff from the oxidized fiberglass on top of his pilot house. 2. Oxidized Isinglass. or 3. Staining of the isinglass from chemical cleaners used to wash either the fiberglass above or the isinglass itself.

How to deal with it?

1.If it is oxidation from the fiberglass above running down the isinglass and adhering to it as it runs off. First a good cleaning and polishing of the above fiberglass should be done.

Next Clean the isinglass probably in his case it will take an aggressive approach with Plast X, Meguiar's Mirror Glaze M-1708 Clear Plastic Cleaner or any number of readily available wax like cleaners Applied to a cotton or microfiber towel that is folded and quartered then rubbed aggressively onto the affected area. (some may be cringing at this time saying "what about scratching", at this point it sounds like visibility may be the bigger issue...)

After buffing this on a sample piece use a clean section of towel to remove what is left of the product and check your work. Continue if it works or move on to next step if not. In our business we will then move to using an orbital polisher with a foam pad to buff the isinglass, which when all else fails can produce exceptional results.

2.Same answer as above use a plastic/isinglass cleaner type wax or polish first by hand then if not working by machine to remove. Starting with small test first then doing larger piece as you get satisfactory results.

3. Again same as 1-2

In our business in Seattle we use a blend of products we have found does great to clean and protect heavily stained and or oxidized isinglass. here is a pic REMOVED link of isinglass that we are in the process of cleaning using the orbital buffing process mentioned above. in this case buffing by hand did almost nothing. Using the orbital buffer made this isinglass look brand new...

The key to all this is test what works and proceed, if your not getting the results you want or don't want to risk damaging something as expensive as isinglass contact a local professional to ask advice or get a bid. They (we, shameless plug...) are there to help...

The other thing is find the source and deal with that first. If the fiberglass is dull or faded and or turns water milky or white at all when you wash, it is the source and needs to be buffed... Good luck and happy boating!