didFinishLaunchingWithOptions.m

- (BOOL)application:(UIApplication *)application didFinishLaunchingWithOptions:(NSDictionary *)launchOptions
{
	// perform any custom startup stuff you need to ...
        // process your launch options
	NSArray *keyArray = [launchOptions allKeys];
	if ([launchOptions objectForKey:[keyArray objectAtIndex:0]]!=nil) 
	{
               // we store the string, so we can use it later, after the webView loads
		NSURL *url = [launchOptions objectForKey:[keyArray objectAtIndex:0]];
		self.invokeString = [url absoluteString];
		NSLog(@amp;" launchOptions = %@",url); // if you want to see what is happening
	}
	// call super, because it is super important ( 99% of phonegap functionality starts here )
	return [super application:application didFinishLaunchingWithOptions:launchOptions];
}

handleOpenURL

// Objective-C code in your AppDelegate
- (BOOL)application:(UIApplication *)application handleOpenURL:(NSURL *)url 
{
	// Do something with the url here
	NSString* jsString = [NSString stringWithFormat:@"handleOpenURL(\"%@\");", url];
	[webView stringByEvaluatingJavaScriptFromString:jsString];
	
	return YES;
}


// JS code loaded in your webview
function handleOpenURL(url)
{
    // TODO: do something with the url passed in.
}

onDeviceReady.js

function onDeviceReady()
{
    // do your thing!
   // at this point, the page is loaded and PhoneGap is ready to rock.
   // and if we have been launched with a protocol, we can access it via the invokeString variable.
   
   if(invokeString)
   {
       alert("I got a freaking invokeString :: " + invokeString);
   }
}

webViewDidFinishLoad.m

- (void)webViewDidFinishLoad:(UIWebView *)theWebView 
{
	// only valid if ___PROJECTNAME___.plist specifies a protocol to handle
	if(self.invokeString)
	{
		// this is passed before the deviceready event is fired, so you can access it in js when you receive deviceready
		NSString* jsString = [NSString stringWithFormat:@"var invokeString = \"%@\";", self.invokeString];
		[theWebView stringByEvaluatingJavaScriptFromString:jsString];
	}
	return [ super webViewDidFinishLoad:theWebView ];
}