The SANS Securing Unix and Windows courses would likely cover these topics:
https://www.sans.org/security-training/securing-linux-unix-76-mid

https://www.sans.org/security-training/securing-windows-77-mid

You might also find these books to be useful:
http://www.amazon.com/Hardening-Linux-James-Turnbull/dp/1590594444/ref=sr_1_1?ie=UTF8&qid=1330455728&sr=8-1 (a bit dated, but many concepts still apply)

http://www.amazon.com/Thors-Microsoft-Security-Bible-Collection/dp/1597495727/ref=sr_1_7?ie=UTF8&qid=1330455742&sr=8-7

Not that I'm aware of. Encryption implementation is usually product/OS-specific (even though most of the algorithms used are standard), so that topic is included as a subset of more general courses. Security+ and/or SSCP might cover the topics you're interested in as well.

MIT OpenCourseware also has some cryptography courses, but that's more math/CSci, and I don't think that's what you're looking for: http://ocw.mit.edu/courses/#electrical-engineering-and-computer-science

You can learn a lot of this simply by doing research online. For example, MS Technet is going to cover all those items for Microsoft/Windows platforms.

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