I solved my own problem. I'm telling what i did and what i use for a reference for other people.
I had an ADSL connection with 830 kbit upload limit and 8 Mbit download limit (i tested with speedtest.net). I had to set traffic shapers upload limit to 450-500 kbit to prevent high packet loss. Besides of that from LAN to WAN upload bandwidth was almost getting doubled. Setting upload limit to 500 kbit was reducing my upload capability. It should be around 800-850 kbit.
Solution:
I had set pfsense's BOTH lan and wan's MTU to 1454 and MSS to 1414. I also set my Nas4Free (which is on 24/7) rig's and my main computer's MTU to same values.
These steps solved the problem, i raised my upload limit to 800 kbit, packet loss is between 0% and 4% under heavy upload and download. According to my research these values are normal.
Still problem:
From LAN to WAN upload graph is still getting doubled, for example under heavy upload i see a graph revolves around 800-900 kbit under LAN, and 1.40-1.60 Mbit graph under WAN. It doesn't affect the internet or network though but it still remains a mystery to me