I've just built the miner on a 2nd x64 PC following my own instructions and it compiled OK.
Can also confirm it works fine as per the instructions (fresh cygwin install).
With the default instructions (no specific optimizations, but your checksums may vary anyway):
| method | checksum for minerd.exe |
| MD5 | 1c3130c7935eb73f674bd8fa9768d67f |
| SHA1 | 6ee38f42fb8e62082dbe6e84487fed50847397cd |
| SHA256 | 3963517e53b03ed4d6aa2066477554e95afef3f67d35f76b2bae8f35fe9adc76 |