(1)证明:由翻折的性质,可知$\angle A=\angle DGE,$$\angle C=\angle DGF,$$AD = DG,$$DC = DG,$所以$AD = DC.$
因为$\angle A=\angle B = 90^{\circ},$所以$\angle C=\angle DGE=\angle DGF = 90^{\circ},$
所以四边形$ABCD$是矩形.
又因为$AD = DC,$所以矩形$ABCD$是正方形.
(2)解:设$AE = x.$
因为$F$是$BC$的中点,$AB = 6 = BC,$所以$BF = CF = 3.$
由翻折可知$AE = EG = x,$$CF = GF = 3,$
所以$BE = 6 - x,$$EF = x + 3.$
在$Rt\triangle BEF$中,$\angle B = 90^{\circ},$
所以$EF^{2}=BE^{2}+BF^{2},$
即$(x + 3)^{2}=(6 - x)^{2}+3^{2},$
展开得$x^{2}+6x + 9 = 36 - 12x+x^{2}+9,$
移项得$6x + 12x = 36 + 9 - 9,$
即$18x = 36,$
解得$x = 2,$所以$AE = 2.$