I don't know how familiar are you with other higher level programming languages. Garbage collection is an important function in Java. It would be important to read a bit about the GC in your VM of choice.
Besides the obvious packages, check out the java.util packages for the collection framework. You might want to check out the source of some classes. I suggest HashMap
to get the idea of the computing/memory cost of these operations.
Java likes to use streams instead of buffers when processing large amounts of data. That may take some time getting used to.
Java has no unsigned types. Depending on the packets of data you need to process at once you can either use larger variables and streight arythetics (if we're talking about relatively small packets), or you have to (b[i] & 0xff)
every time you read for example unsigned bytes. Also note that Java uses network byte order (msbf) when serializing multibyte numbers.
The most beloved design patterns by the API are Singleton, Decorator and Factory. Check the source of JFC itself for best practices, how these patterns are achieved in the language.
... and you can still post more concrete questions on SO :)