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During practice of meditation experience there are thoughts that can't be noticed. But they stop on their own and later they appear to show up less and less. The thoughts were less wondering with the practice.
Is this due to obsessive defilment become less?
In what stage this is experienced?
This is exactly a common behaviour during practice. There are certain ways you could identify this
The best practice is obsessive defilment (Always!). You can try watching television and practice the meditation and check those thoughts appear as before. If it does, you must continue to make the defilment less.
If you are following Four Satipattana, and if you tend to see less thoughts; you are in the 3rd level arūpajhāna and trying to settle in the arūpajhāna. It is best if you could get Kamatahan (advices) from a teacher/someone superior to you. This helps you to clarify your level and the path to your ultimate goal.
Edit
If you add something in there about sankharas being the scheme of the unconscious mind which influence unwholesome thoughts, and clear-up the contention with arupajhana,
When following Four Sattipattana while meditating, in simple terms:
You are no longer talking (Vachi Sankhara), your eyes are not open, you are not focussing on other conversations happening, You are in one place and in the meditation position (kāya,saṅkhāra), You are not thinking of anything else rather than the meditation practice(citta saṅkhāra).
No saṅkhāra is happening when you are meditating as all the doors are closed and the subconscious mind is unable to save photocopies what's happening around you (cannot see, hear, feel). The subsconscious mind (or the wizard) is the photocopier of your mind. Therefore the subconcious mind can only distract you from your memories, hallucinations, illusions.
When someone is following the Four satipattana,
Quite secluded from sense pleasures, secluded from unwholesome states of mind, he enters and dwells in the first jhana, which is accompanied by applied thought and sustained thought with rapture and happiness born of seclusion. (M.i,1818; Vbh.245)
When you practice the four satipattana, feelings, pains occur for your past khlesa(Mental Impurities)/akusal(unwholesome deeds). Eg: You will feel pinching, tearing you apart, burning and many more according to your Karma. You tend to focus on Grouping of Matter and Maitri the groupings which is Vedānupassanā
Since you are not attached, and the mind is not attached to Kaya(body), you are overviewing the Grouping of matter unattached. Therefore you are in the second Dhyana by Sukha
Since you are not attached to the Kaya, you are feeling the emptiness (But not always with the Vedānupassanā).
Until you clear the defilments with Maitri Grouping of matter, you will not be in the 4th Dhyana
When you are not attached you are feeling consciousness, a sensation (1 of the Chiththakshana -Mental factors[1/27]) which is the 1st level of arupa dhyana but you are experiencing the 3rd level of arupdhyana ("The Base of No-thingness") when your defilment is getting almost cleared. But it doesn't settle there unless you are sotapanna.
This is very hard to explain when translating to english. You could experience it to yourself by you will need to read abhidhamma pitaka and apply those into your exercise with the help of a Kamatahan(Advicing) Teacher.
