FFT Scan can be done from the back office and FMA can be used for analysis showing PIM Interference, Wideband External Interference, and Narrowband External Interference. But U can get a low as -60dbm which would probably be due to poor installation on site.
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Last night we switched all the sites in town at night and run OSS and we were still picking up some RTWP.
Could it mean it’s indeed external cause after all sites were off and runned OSS we were still picking up something?
What value?
Are there any repeater /small cell near site?
Not repeaters, but some some small cells seems to be there.
But with spectrum analyzer when hunting we are not picking up anything.
It can be external!
Have you verified any GPS clock alarms on neighbor or nearby sites?
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Have you find increase in UL BLER as well without increase in user?
Is it TDD site?
Also look if ducting is there or not.
Some links may be useful:
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All the sites are FDD.
I have hunted almost all the areas affecting cells for external interference without any luck of picking up a thing. 
What should be the next step? And what can you all dears recommend in terms of further investigations?
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Have you checked PIM?
PIM was never done yet. 
Also, on the other site they changed all the cables, antennas but still they RTWP is high.
For external interference, if possible, visit on highly impacted site location and use Spectrum Analyzer and connect with your Antenna.
Did you identify the suspected Direction?
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Better with espectrogram.
If you have high RTWP your issue is external interference.
I have this problem with chinese repeater, check this picture.
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Is it good practice to go up to site location (assuming rooftop), leaving the sector behind you and moving spectrum antenna around?
In picture, impact on 2 cells on same site, is it right?
Nothing not even some spikes.
Wb repeater.
The problem was cheaper repeaters, if this people use Andrew or Comba or Cornin don’t have problem.
This equipment have price of 60 USD.
I don’t agree… If your existing frequency band used by other it will surely impacted.
The problem is from isolation, as you can see is on one channel of 200 kHz.
Exactly what I did, but was using Anritsu Spectrum.