OS X Yosemite always mounts usb-hdd to the new folder I have a Seagate Free Agent HDD drive with NTFS formatted. 
Since there was trouble with writing to NTFS partition in Yosemite, I've installed OSXFUSE from dmg package and ntfs-3g from homebrew and it becomes writeable. 

But, I've noticed, that every time, I connect the hard drive, It mounts to the new folder.

OSX will normally create a directory/folder as the mount point in the /Volumes/ area for a drive. When you unmount the drive, the system should also remove all references of the mount point from /volumes/. I.e the folder it created.

But in this case when I unmount my drive the system is not clearing the mount point folder it created in /volumes/

for instance here is output of listing Volumes folder:

$ ls -l /Volumes/
total 16
d--x--x--x+ 3 root          admin   102 Jan 24 12:57 FreeAgent Drive
d--x--x--x+ 3 root          admin   102 Jan 24 13:01 FreeAgent Drive 1
drwxrwxrwx  1 nikolaygolub  staff  4096 Jan  9 01:35 FreeAgent Drive 2
lrwxr-xr-x  1 root          admin     1 Jan 24 12:50 LV -&gt; /


As you can see the old mount point folders still exist and each new one increments with a number increases. 

I've tried to remove all folder after disc ejecting, but it didn't help. I've noticed following messages in log file:

24/01/15 13:02:10,654 ntfs-3g[782]: Version 2014.2.15 external FUSE 27
24/01/15 13:02:10,654 ntfs-3g[782]: Mounted /dev/disk3s1 (Read-Write, label "FreeAgent Drive", NTFS 3.1)
24/01/15 13:02:10,655 ntfs-3g[782]: Cmdline options: volname=FreeAgent Drive 2,local,negative_vncache,auto_xattr,auto_cache,noatime,windows_names,user_xattr,inherit,uid=501,gid=20,allow_other,nodev,noowners,nosuid
24/01/15 13:02:10,655 ntfs-3g[782]: Mount options: volname=FreeAgent Drive 2,local,negative_vncache,auto_xattr,auto_cache,allow_other,nodev,noowners,nosuid,allow_other,nonempty,noatime,default_permissions,fsname=/dev/disk3s1,blkdev,blksize=4096
24/01/15 13:02:10,655 ntfs-3g[782]: Global ownership and permissions enforced, configuration type 1
24/01/15 13:02:10,764 fseventsd[20]: failed to make the directory /Volumes/FreeAgent Drive 2/.fseventsd (5/Input/output error)


How can I fix this? It looks like a minor issue, but I don't want to periodically clean up folders after OS. 

I want to achieve normal behavior for mounted NTFS drives: I want to be able to write to them and I don't want to manually delete folders, created during automount.
I don't have any problems with that in OS X Mavericks.

P.s. Yosemite is the worst OS X ever.
Firstly you should not need any extras to mount NTFS drives.

You do not make it clear what you want to achieve.

I have an old FreeAgent I used for Windows backup. I DON'T want it to automount, so I have the following in etc/fstab see edit detail below

#
# Warning - this file should only be modified with vifs(8)
#
# Failure to do so is unsupported and may be destructive.
#
UUID=E00F307A-9295-482E-8A79-2FA2C922F3CD none ntfs rw,noauto
⋯
LABEL=Tempy none ntfs rw,noauto


I can use DiskUtility to mount if I want to access these.

If you want to auto mount in a specific directory you can create an entry to do this. If you do create a directory and edit fstab.

NOTE you should use vifs, which requires a knowledge of vi commands, so you should look at man vi to discover the basic commands.

 :q! quits
 :wq saves 
  i to insert