Trouble with skipping ticks. Small server about 10 basic mods

I recently have been starting to have problems with my server skipping ticks. It worked flawlessly the past 3 weeks and am Trying to figure out the cause. All recent plugins have been removed but we still are having a fluctuation in TPS. Currently we are running on a xeon 3.3ghz 5 gig server on pixelmon 5.0.1

Not sure what is causing this.

07.02 08:38:19 [Server] Server thread/WARN Can’t keep up! Did the system time change, or is the server overloaded? Running 2159ms behind, skipping 43 tick(s)
07.02 08:38:53 [Server] Server thread/WARN Can’t keep up! Did the system time change, or is the server overloaded? Running 2443ms behind, skipping 48 tick(s)
07.02 08:38:54 [Server] Server thread/INFO [nucleus]: HeadbandOG ran the command: /pc
07.02 08:39:31 [Server] Server thread/WARN Can’t keep up! Did the system time change, or is the server overloaded? Running 2219ms behind, skipping 44 tick(s)
07.02 08:40:08 [Server] Server thread/WARN Can’t keep up! Did the system time change, or is the server overloaded? Running 2427ms behind, skipping 48 tick(s)
07.02 08:40:43 [Server] Server thread/WARN Can’t keep up! Did the system time change, or is the server overloaded? Running 2243ms behind, skipping 44 tick(s)
07.02 08:41:25 [Server] Server thread/WARN Can’t keep up! Did the system time change, or is the server overloaded? Running 2588ms behind, skipping 51 tick(s)
07.02 08:42:10 [Server] Server thread/WARN Can’t keep up! Did the system time change, or is the server overloaded? Running 2577ms behind, skipping 51 tick(s)
07.02 08:42:56 [Server] Server thread/WARN Can’t keep up! Did the system time change, or is the server overloaded? Running 2434ms behind, skipping 48 tick(s)

This was taken from console when only I was on server standing still.

Best thing you can do is run some timings on your server, start them with /sponge timings on then, after five or so minutes, /sponge timings report. This will give you a link to your timings, where you can see what might be causing problems.

See Commands and Permissions — Sponge 7.2.0 documentation

Here is my timings report. They actually look ok. But we experience a skip every 40 seconds almost on the dot.

https://timings.aikar.co/?id=db098d8bc0e245679531c57a359d0a2c&section=lag

You are on a vastly outdated SpongeForge - please update. You are easily a hundred versions behind., so both Forge and SpongeForge will need moving up. That also imples all your plugins will need updating. Furthermore, we will need a timings with more than just one player on, so that we can see the server ‘in action’.

If you need further help with your Pixelmon server, the Pixelmon Mod has a support channel on their Discord. You can join here.

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