Although there are at least three ways to recover from an .ibd file you should never do that in normal restore, only when backups are not available:

1. Update SPACE_ID in table.ibd
2. Update SPACE_ID in ibdata1
3. Fetch records from table.ibd

Instead you should backup InnoDB tables correctly with either tool:

• mysqldump
• xtrabackup
• mylvmbackup (if you have LVM)

Although there are at least three ways to recover from an .ibd file you should never do that in normal restore, only when backups are not available:

1. Update SPACE_ID in table.ibd
2. Update SPACE_ID in ibdata1
3. Fetch records from table.ibd

Instead you should backup InnoDB tables correctly with either tool:

• mysqldump
• xtrabackup
• mylvmbackup (if you have LVM)

UPDATE: Data recovery toolkit moved to GitHub