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 (
    87627, 87626, 87625, 87624, 87623, 87622, 
    87621, 87620, 88579, 88170, 87964, 
    87680, 88790, 88789, 88788, 87400, 
    87316, 87315, 87314, 87313
  ) 
  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 0.00068

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 40 Using where

Result

product_id price
87313 1.69000000
87314 1.69000000
87315 1.69000000
87316 1.69000000
87400 1.69000000
87620 1.69000000
87621 1.69000000
87622 1.69000000
87623 1.69000000
87624 1.69000000
87625 1.69000000
87626 1.69000000
87627 1.69000000
87680 1.69000000
87964 1.69000000
88170 1.69000000
88579 1.69000000
88788 1.69000000
88789 1.69000000
88790 1.69000000