So the problem is only limited to LCD subpixel aliasing, when I select the antialiasing type of "best contrast", "best shapes" or "monochrome", tilde remains a tilde. All these antialising however cause huge variations in the font widths and kerning, as well as causing perceived emboldening at the 12→13pt switch. Subpixel antialiasing produces fonts that are visually consistent across point sizes, but clearly does something too eagerly to the tilde.
So the problem is only limited to LCD subpixel aliasing, when I select the antialiasing type of "best contrast", "best shapes" or "monochrome", tilde remains a tilde. All these antialising however cause huge variations in the font widths and kerning, as well as causing perceived emboldening at the 12→13pt switch. Subpixel antialiasing produces fonts that are visually consistent across point sizes, but clearly does something too eagerly to the tilde.