SELECT 
  cscart_product_prices.product_id, 
  MIN(
    IF(
      cscart_product_prices.percentage_discount = 0, 
      cscart_product_prices.price, 
      cscart_product_prices.price - (
        cscart_product_prices.price * cscart_product_prices.percentage_discount
      )/ 100
    )
  ) AS price 
FROM 
  cscart_product_prices 
WHERE 
  cscart_product_prices.product_id IN (
    64531, 63919, 63727, 64535, 64525, 64524, 
    64509, 64424, 64100, 64099, 63197, 
    64508, 64507, 64506, 64505, 64429, 
    64428, 64427, 64426, 64425, 64393, 
    64208, 63573, 63572, 61775, 61755, 
    64145, 64122, 64121, 64120, 61891, 
    64080, 64079, 63775, 63898, 63897, 
    63871, 63718, 63301, 63300
  ) 
  AND cscart_product_prices.lower_limit = 1 
  AND cscart_product_prices.usergroup_id IN (0, 1) 
GROUP BY 
  cscart_product_prices.product_id

Query time 0.00152

Explain
id select_type table type possible_keys key key_len ref rows Extra
1 SIMPLE cscart_product_prices range usergroup,product_id,lower_limit,usergroup_id usergroup 9 80 Using where

Result

product_id price
61755 1.69000000
61775 1.69000000
61891 1.69000000
63197 1.69000000
63300 1.69000000
63301 1.69000000
63572 1.69000000
63573 1.69000000
63718 1.69000000
63727 1.69000000
63775 1.69000000
63871 1.69000000
63897 1.69000000
63898 1.69000000
63919 1.69000000
64079 1.69000000
64080 1.69000000
64099 1.69000000
64100 1.69000000
64120 1.69000000
64121 1.69000000
64122 1.69000000
64145 1.69000000
64208 1.69000000
64393 1.69000000
64424 1.69000000
64425 1.69000000
64426 1.69000000
64427 1.69000000
64428 1.69000000
64429 1.69000000
64505 1.69000000
64506 1.69000000
64507 1.69000000
64508 1.69000000
64509 1.69000000
64524 1.69000000
64525 1.69000000
64531 1.69000000
64535 1.69000000