I think that something might be wrong with your substrate definition in ADS.
FR4 is pretty bad for patch antennas, because of the high substrate loss. This reduces the gain, compared to low loss substrates.
I did a quick test with Sonnet EM, using FR4 with 1.5mm height, epsr=4.4 and tand=0.017. This substrate loss is what I measured for my own design work on FR4 in this frequency range. FR4 has much variation between different manufacturers, so you might find other values for FR4 from other manufacturers.
With this, the gain (E_total) is 1.6dBi for the 28.5mm*38mm patch and 1.2dBi for the square path with 28.5mm *28.5mm. This are normal linear polarized patches with pobe feed.
You can see that the patch width changes the gain only a little bit, not by 3dB. Maybe you have a problem with the substrate definition and/or with the defintion of the gain that you look at (polarization).
Added after 1 hours 32 minutes:
chanzg said:
circular polarized antenna so i made it square 29.4 x 29.4 with truncated corners
I tried to build something similar, and with my substrate properties given above, I end up at 29mm length. The gain is around 1dBi with left hand polarization. This value is not much different from the linear polarization square patch, where I had 1.2dBi.