Apps list in Navigation User Menu is short and out of order

This is really a minor problem, but I thought it should be noted.
The Apps list that comes as part of the user menu only shows 7 apps (even though I have about 15), and it doesn't show them in the order that I've specified in salesforce.


The Apps list that comes as part of the user menu only shows 7 apps (even though I have about 15), and it doesn't show them in the order that I've specified in salesforce.
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However, I'm not sure why certain apps are missing from the list. Is there anything "common" to the apps missing from Skuid, but shown in the standard apps picker? It looks like all the ones missing are custom apps, but Skuid is a custom app as well and is included, as is Batch Data Entry, I believe.
Perhaps I'm doing something wrong when I create apps?
We're trying to figure out why these aren't showing up. Don't worry, you're not doing anything wrong
Skuid order:
SFDC (desired) order: