Quoting Kiya;
As you can see in the following list, there are 7 different plants you need to make all potions with the "extract" skill. You will only get level 3-5 in Act 4. Empty flasks are not required.
Level 1 => small potions
Level 2 => medium potions
Level 3 => large
level 4 => large (stronger) + permanent potions + holy water (quest reward)
level 5 => large (even more stronger) + perm potions in vitality, mana, stamina are stronger, too.
vitality => red, blue
mana = green, pink
stamina => white, orange
strength => red, blue, yellow
int => white, green, pink
agility => white, orange, green
survival => red, blue, green
con => orange, yellow, pink
speed => orange, white, yellow
restoration => can only be done with the "combine skill" => dragging red over blue potions.
The holy water can only be used once, since the 1.43 patch, but the effects were increased. Battlefield merchants have a small chance of having holy water for sale.