part (3) - "Will there be any problem uploading this app to the app store?" :
The maximum size of .ipa in AppStore depends on your internet connection.
For app to be downloaded over 3G, the maximum size should be 100MB. Over Wi-fi connection or iTunes the maximum size is 2GB.
part (2)
To reduce the iPA size you can reduce the size of the images. Generally in an application you do not require high resolution images (not more than what the device supports).
If there are images you can make the application download from some external server, that would be better. That way you can download the images the first time app is launched and save in the sandbox of the app and they can be used later in the app by fetching from the sandbox. This can reduce your iPA size considerably.
part(1)
Generally the binary size is less than the actual folder size. I could not see from where your iPA size is increasing.