VR Baseball 99 contains all 30 major league baseball teams and stadiums. Each team consists of the 1998 opening day rosters.

Play modes include exhibition, season, and home run derby. Options include: three difficulty settings, pitch speed, arcade or simulation hitting, fielding assistance, # of innings, DH, errors, injuries, and game time(day, night, dusk, overcast, or random).

Season mode features a variety of options and statistics, including all-star voting. Leaving a pitcher in too long, colliding with a wall or another player, or a bad slide can all lead to injuries. When injuries occur the player is listed as day-to-day or is placed on the disabled list.