Nope.

Classes in the same package:

ctrl+ click on Requisition, and it opens greyed out:

The package is "Test".

How does the syncing work?

If I change the class in project A must it automatically update project B?

No

Your website seems to keep the image file names and mine are all captureX.png from taking screenshots.

So you have one from my other posts cached,  try ctrl+F5

I think I found the issues, there are 2.

1) The server dropdown looks grayed out even though it is useable.

So after selecting my connection there I can select a namespace

I'm used to this for non disabled dropdowns:

2)  However when I configure a server via the "configure server..." option on the New project screen I still get the error.

Here are my steps

1 Select "configure server..."

2 Type in an existing connection name, select "continue editing", click "Finish"

3. Get the error message and no namespaces

Yup, on the same version

It seems to be fixed in 2016.2 build 605.

BTW I can see the namespaces in the Atelier server explorer, using said credentials: 

Hi

$ZV: Cache for UNIX (Red Hat Enterprise Linux for x86-64) 2016.2 (Build 605U) Thu Feb 25 2016 19:24:57 EST

'nicki' user is a copy of _SYSTEM so role is %All

I get all our namespaces when I log into studio with 'nicki'

As a test, I have changed the credentials in the atelier server connection to _SYSTEM, and I get the same issue

It is tedious to delete classes from multiple packages.

And also that query is dangerous, new devs will cause havoc with it.