You most likely have the connected textures option on from Optifine (If your even using optifine). I would suggest looking in your options for connected textures and turn it off or switch to McPatcher.
I have the same problem except that i want that connected glass like the 1 on top. I'm using mcpatcher and i have the connected texture and better glass icon on but it doesn't work. It all shows up like the one with gold edges. If someone could tell me what is wrong that would be great.
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I want it to look like the single glass when all together, with just the gold corners. I don't want the crosses:
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How do I change it?
Old school Minecraft for the win!
You can re-patch, or remove glass from the CTM folder of the pack.
*Connected Textures