Boot-Repair ran the fix for "buggy" UEFI which may not be required. But with the fix the only boot entry that will correctly boot Windows is the Boot-Repair one that also seems to be misnamed.
menuentry "Windows UEFI recovery bkpbootmgfw.efi" {
With the rename it lets the UEFI boot the Windows efi file, but it really is grub2's shim. Some UEFI only boot Windows. If you can boot the ubuntu entry from your UEFI menu you should undo the rename.
To undo & to rename files to their original names, you just need to tick the "Restore EFI backups" option of Boot-Repair.
Also you cannot use the grub update or the boot stanza by os-prober as your version still has the bug. This is a BIOS boot entry that will not work with UEFI. Fix in 13.10's version of grub.
menuentry "Windows Recovery Environment (loader) (on /dev/sda3)"
It looks like you originally installed Ubuntu in BIOS boot mode and from that you would not be able to boot Windows. Boot-Repair converted install to UEFI by uninstalling grub-pc and installing grub-efi.
Both systems must be in UEFI mode to dual boot from grub menu. You may have been able to boot from UEFI menu in Legacy/CSM/BIOS mode for Ubuntu and UEFI mode for Windows. But now both are UEFI which is preferred.
If you left Windows hibernated you will still have issues.