You can create an executable /bin/bash script that you can run to clear out trash, cache, temporary, thumbnails and run apt autoclean.
You can use the apt-mark hold command on any packages that you do not want to get upgraded.
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Is there a way to do it on Synaptic Package Manager? Then should I uncheck Source Code from Software & Updates? On some updates title I read (source code) but I suppose I don't need them.
Yes, this should not be checked in the first place unless a specific package necessitated it that you know fully about.
Yes. Search the package you want to hold in Synaptic. Select it with Left Click.
On the Menubar click Package. In the popover menu, click the checkbox for Lock Version.
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I have bleachbit installed, but do not use it even though I have limited HDD space.
I have found occassional manual cleaning of apt and journalctl keeps disk space in order.
e.g. these posts:
How to do a disk clean up? - #2 by Aravisian (the 2 terminal commands)
Using the Terminal Emulator in Linux Distros - #2 by zabadabadoo
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