Why does select count(*) return zero, while normal select returns a normal selection?

Question

MySQL

Good afternoon, colleagues.
There was such a problem.
Updated mysql 5.6 (only a minor figure has been updated, now 5.6.27 from the official mysql repository, that is, before that there was another 5.6.* version).
And now the simple select count(*) request has fallen off.
Full listing:

SELECT COUNT(*) as `count` FROM `package` WHERE `active`=1 AND `deleted`=0

The query returns null.
Such a request

SELECT * FROM `package` WHERE `active`=1 AND `deleted`=0

returns a normal selection of 900+ records (total ~ 1000 rows in the table)
If executed with only one of the conditions, for example

SELECT COUNT(*) as `count` FROM `package` WHERE `deleted`=0

or

SELECT COUNT(*) as `count` FROM `package` WHERE `active`=1

then a normal value (900+) is returned.
After optimize table about 10 minutes the base starts returning the correct value. But after 10 minutes again zero.
Once a minute, one row in the table is updated. No new lines appear.
What could be the problem?